From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!BIGFOOT.COM!athel From: athel@BIGFOOT.COM (Athel Cornish-Bowden) Newsgroups: bionet.software Subject: IUBMB is trying to end enzyme classification Date: 2 May 1997 00:29:59 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 32 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Do you use any of these databases (or other similar ones) to find information about enzymes or metabolic pathways? Biocatalysis/biodegradation database (http://dragon.labmed.umn.edu/~lynda/index.html)? EcoCyc (http://www.ai.sri.com/ecocyc/ecocyc.html)? GenoBase (http://specter.dcrt.nih.gov:8004/Pathway/pathway_toc_by_name.html)? KEGG (http://www.genome.ad.jp/kegg/kegg1.html)? SoyBase (http://probe.nal.usda.gov:8000/plant/aboutsoybase.html)? SwissProt (http://www.expasy.ch/sprot/sprot-top.html)? WIT (What is there?) (http://www.cme.msu.edu/WIT/)? If so you will know how much they depend on the EC classification system for enzymes sponsored (until now) by IUBMB. You will also be concerned by the fact that the IUBMB Executive Committee has taken a decision that if not reversed will make it impossible for this work to continue. Full information, including suggestions of what you can do about it, is given on a web page at http://www.chem.qmw.ac.uk/iupac/jcbn/help.html. Athel Cornish-Bowden From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!daresbury!uninett.no!stdio!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!newsfeed.direct.ca!nntp.portal.ca!news.bc.net!uvaix3e1.comp.UVic.CA!hera.bioc.uvic.ca!cupton From: cupton@uvic.ca (Chris Upton) Newsgroups: bionet.software Subject: GC richness Date: Fri, 2 May 97 22:36:19 GMT Organization: University of Victoria Lines: 12 Message-ID: NNTP-Posting-Host: hera.bioc.uvic.ca X-Newsreader: VersaTerm Link v1.1.6 Hi, I'd like to hear what's everyone's favorite tool for looking at AT/GC richness in DNA sequences. I'm interested in viewing changes in richness across large sequences 20-200 kb. Cheers, Chris Upton Chris Upton Biochemistry & Microbiology University of Victoria phone 250-721-6507 BC Canada fax 250-721-8855 From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!rill.news.pipex.net!pipex!oleane!jussieu.fr!fdn.fr!r2d2.fdn.org!med.univ-tours.fr!univ-angers.fr!ciril.fr!u-strasbg.fr!news From: simonson@schlitz.u-strasbg.fr (Thomas Simonson) Newsgroups: bionet.molec-model,bionet.xtallography,bionet.software-xplor,bionet.software,bionet.biophysics Subject: Protein Engineering Symposium Date: 2 May 1997 13:34:31 GMT Organization: CRC - Universite Louis Pasteur - Strasbourg France Lines: 54 Message-ID: <5kcqh7$b0@news.u-strasbg.fr> NNTP-Posting-Host: schlitz.u-strasbg.fr Xref: biosci bionet.molec-model:1519 bionet.xtallography:3392 bionet.software:18522 bionet.biophysics:2916 Dear Colleagues, We are pleased to announce a one-day symposium in Strasbourg, May 30th, 1997, on "Protein Engineering: from Experiment to Theory and Back". There are no registration formalities or fee. The program follows. For more information send e-mail to koehl@bali.u-strasbg.fr. We look forward to seeing you. Yours sincerely, Patrice Koehl & Tom Simonson Program: 9:45--10:00 Introduction 10:00--11:00 A. Sali (Rockefeller University) Comparative protein structure modelling for genome projects. 11:00--12:00 H. Hellinga (Duke University) Rational protein design: theory, experiments and applications. Break 14:00--15:00 D. Moras (IGBMC, Strasbourg) Protein--ligand interactions in nuclear receptors of steroid hormones. 15:00--16:00 R. Glockshuber (ETH, Zurich) Random circular permutation of proteins: a new approach to study protein folding. Break 16:30--17:30 M. Karplus (Harvard and Strasbourg Universities) Molecular recognition: free energy simulations and combinatorial ligand design. ----------------------------------------------------------- Thomas Simonson Laboratoire de Biologie Structurale, C.N.R.S., Strasbourg e-mail: simonson@zinfandel.u-strasbg.fr From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!daresbury!uninett.no!news-feed.inet.tele.dk!news.daimi.aau.dk!biobase!usenet From: Marek Treiman Newsgroups: bionet.software Subject: Gel analysis software Date: Fri, 02 May 1997 20:43:06 +0200 Organization: University of Copenhagen Lines: 15 Message-ID: <336A35BA.142F@biobase.dk> Reply-To: mat@biobase.dk NNTP-Posting-Host: ppcmt1.mfi.ku.dk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Hello netters, Can anyone recommend a public domain/low cost software for analysis of digitalized gel images? The commercial versions seem outrageously expensive (2,000 $ and up)! Tips greatly appreciated! Cheers Marek -- Marek Treiman, MD,DMS Associate Professor Department of Medical Physiology The Panum Institute University of Copenhagen Blegdamsvej 3C Tel. +45-35327510 Fax +45-35327537 2200 Copenhagen N E-mail mat@biobase.dk Denmark From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!biochem.umass.edu!bscott From: bscott@biochem.umass.edu (Brian Scott) Newsgroups: bionet.software Subject: Free Workshops on Molecular Visualization Date: 2 May 1997 11:39:03 -0700 Organization: U. of Mass. Lines: 112 Sender: daemon@net.bio.net Distribution: world Message-ID: <336A34F9.6062@biochem.umass.edu> NNTP-Posting-Host: net.bio.net NOTE 1: These workshops will be attended primarily by faculty from the NORTHEASTERN USA because of the requirement to travel to Amherst MA on three (3) separate occasions at your own expense. NOTE 2: These workshops are for faculty teaching biological or biochemical subjects involving MACROmolecules, where visualization without modeling is appropriate. Chemistry faculty interested in modeling software for small molecules should consider a separate workshop, http://copper.chem.umass.edu/Lahti-stuff/NERMMW_PAGE/nermmw.html Free Workshops on Molecular Visualization for Undergraduate Bioscience Teaching Amherst MA -- Summer, 1997-8 Free, hands-on workshops will be held this summer at the University of Massachusetts in Amherst to prepare college faculty with no prior experience to use molecular visualization in their classes. Understanding the three-dimensional structures of proteins, DNA, RNA, and their interactions is difficult from flat pictures, yet grasping structure is important to understanding function. Free software is now available which displays attention-grabbing 3D animated images of biological molecules in depth-cued spacefilling color. RasMol (http://www.umass.edu/microbio/rasmol), which works on Windows or Macs, encourages self-directed exploration. Chime (http://www.umass.edu/microbio/chime) allows annotated preset views of molecules to be delivered as web tutorials. Workshop participants will travel to the Amherst campus on three separate days (two this summer, one the following summer), and are responsible for their own travel expenses (and therefore are expected primarily from the Northeastern USA). Overnight accomodations will be provided free to those needing them (based on distance traveled). Participants will be expected to incorporate molecular visualization into their teaching, and to mentor two faculty colleagues at their home institution. The workshops will be led by Eric Martz, a Professor in the Department of Microbiology. Martz has innovated molecular structure tutorials which are in use throughout the USA and in dozens of other countries. The web site he created (see above) was visited by 40,000 people in 1996. 1997 dates are June 17 and 30 (workshop A), or June 19 and July 2 (workshop B). Workshops A and B also meet for one day in late June 1998. To obtain more detailed information and a REGISTRATION FORM, visit http://www.umass.edu/microbio/rasmol/workshop.htm or FAX a request to 413-545-1578, or email a request to emartz@microbio.umass.edu. Supported by the National Science Foundation (Undergraduate Faculty Enhancement, Division of Undergraduate Education) and the University of Massachusetts. From owner-software@net.bio.net Thu May 01 23:00:00 1997 Path: biosci!bcm.tmc.edu!news From: Kim Worley Newsgroups: bionet.software Subject: Re: sequence software for dos systems Date: Fri, 02 May 1997 15:49:06 -0500 Organization: Baylor College of Medicine Lines: 17 Message-ID: <336A5342.7010@bcm.tmc.edu> References: <336783ED.375C@student.uq.edu.au> NNTP-Posting-Host: dot.imgen.bcm.tmc.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; SunOS 5.5 sun4m) To: ANDREA CRAMPTON ANDREA CRAMPTON wrote: > > hi.... > Can anyone point me to a site that deals with sequence alignment and or > manipulation programs for DOS machines...... thanks The BCM Search Launcher is an on-going project to organize molecular biology-related search and analysis services available on the WWW by function by providing a single point-of-entry for related searches (e.g., a single page for launching multiple sequence alignments using standard parameters). If you have access to a Web browser, it is convenient to access these search tools, no software installation required. The URL is given below. ---------------------------------------------------------------- http://kiwi.imgen.bcm.tmc.edu:8088/search-launcher/launcher.html ---------------------------------------------------------------- From owner-software@net.bio.net Fri May 02 23:00:00 1997 Path: biosci!INFOSEL.NET.MX!laborato From: laborato@INFOSEL.NET.MX Newsgroups: bionet.software Subject: Molecular aggregation Date: 3 May 1997 15:10:20 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 10 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Hi neters Does anyone have info. how measurement molecular aggregation? Thank in advance. Eduardo Pérez Campos E-mail: laborato@infosel.net.mx laborato@oaxaca.infosel.com.mx From owner-software@net.bio.net Fri May 02 23:00:00 1997 Path: biosci!agate!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!daresbury!uninett.no!news-feed.inet.tele.dk!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!netnews.com!news.dx.net!news From: "The Smiths" <1jsmith@pnx.com> Newsgroups: bionet.software Subject: Shareware now offered!!! Date: 3 May 1997 17:43:11 GMT Organization: The DataXchange Network, Inc Lines: 4 Message-ID: <01bc57ea$bfbb05c0$5d61bec7@default> NNTP-Posting-Host: s093.pnx.com X-Newsreader: Microsoft Internet News 4.70.1155 We also offer CGI, JavaScript, and Web and Graphic Design services, along with a graphic library. Registered software from $5 and up. http://www.pnx.com/smiths/ From owner-software@net.bio.net Sat May 03 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!uwm.edu!news-peer.gsl.net!portc01.blue.aol.com!newsstand.cit.cornell.edu!ahe4 From: ahe4@cornell.edu (KOACS) Newsgroups: bionet.software Subject: **Looking for good Sequence Analysis Software?** Date: Sun, 04 May 1997 15:05:50 -0400 Organization: Cornell University Lines: 14 Sender: ahe4@cornell.edu (Verified) Message-ID: NNTP-Posting-Host: bababooey.resnet.cornell.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.2.0 I need a high quality program which will quickly align several human and mouse genome sequences and highlight differences. The program will probably have to err on the side of false positives so I don't miss any sequence variants. Any hardware platform is fine. Does anybody have any good suggestions? Thanks -- ---King of All College Students--- "My arrogance extends only as far as my talent demands." "We have a threesome every night.. Me, my wife and my money"-Howard Stern From owner-software@net.bio.net Sat May 03 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeeds.sol.net!uwm.edu!msunews!not-for-mail From: trier@pilot.msu.edu (Terry Trier) Newsgroups: bionet.software Subject: physiology software Date: 4 May 1997 14:20:45 GMT Organization: Michigan State University Lines: 15 Message-ID: <5ki5vt$cnf$2@msunews.cl.msu.edu> NNTP-Posting-Host: pm247-29.dialip.mich.net Mime-Version: 1.0 Content-Type: Text/Plain; charset=ISO-8859-1 X-AUTHid: trier X-Newsreader: WinVN 0.99.5 I am looking for some physiological software (IBM) that can be used in a comparative physiology lab class to simulate cellular and whole organism processes. Any help, suggestions etc would be greatly appreciated. Direct email responses would also be appreciated. Thanks. -- Terry M. Trier, Michigan State University, trier@pilot.msu.edu ----------------------------------------------------------------- The flow of energy through a system acts to organize that system. ---Harold Morowitz, Energy Flow in Biology--- From owner-software@net.bio.net Sat May 03 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!gondor!newshub.sdsu.edu!newshub.csu.net!zdc!super.zippo.com!newsfeed.direct.ca!news.maxwell.syr.edu!news-peer.gsl.net!uwm.edu!msunews!not-for-mail From: trier@pilot.msu.edu (Terry Trier) Newsgroups: bionet.software Subject: Re: physiology software Date: 4 May 1997 14:26:09 GMT Organization: Michigan State University Lines: 28 Message-ID: <5ki6a1$cnf$4@msunews.cl.msu.edu> References: <5ki5vt$cnf$2@msunews.cl.msu.edu> NNTP-Posting-Host: pm247-29.dialip.mich.net Mime-Version: 1.0 Content-Type: Text/Plain; charset=ISO-8859-1 X-AUTHid: trier X-Newsreader: WinVN 0.99.5 I should have mentioned that this is animal physiology. In article <5ki5vt$cnf$2@msunews.cl.msu.edu>, trier@pilot.msu.edu says... > >I am looking for some physiological software (IBM) that can be used in >a comparative physiology lab class to simulate cellular and whole >organism processes. > >Any help, suggestions etc would be greatly appreciated. Direct email >responses would also be appreciated. > >Thanks. > >-- >Terry M. Trier, Michigan State University, trier@pilot.msu.edu >----------------------------------------------------------------- >The flow of energy through a system acts to organize that system. > ---Harold Morowitz, Energy Flow in Biology--- > -- Terry M. Trier, Michigan State University, trier@pilot.msu.edu ----------------------------------------------------------------- The flow of energy through a system acts to organize that system. ---Harold Morowitz, Energy Flow in Biology--- From owner-software@net.bio.net Sat May 03 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.mel.connect.com.au!news.mel.aone.net.au!inferno.mpx.com.au!news.unimelb.edu.au!wehi.edu.au!wehi!vladimir From: vladimir@wehi.edu.au (Vladimir Brusic, The Walter&Eliza Hall Institute) Newsgroups: bionet.software Subject: Re: T cell epitope prediction ? Date: 5 May 97 01:37:22 +1000 Organization: Walter & Eliza Hall Institute Lines: 39 Message-ID: <1997May5.013722@wehi> References: <5ht3ja$odd@rc1.vub.ac.be> NNTP-Posting-Host: wehiw.wehi.edu.au In article , ghermans@luc.ac.be (Guy Hermans) writes: > In article <5ht3ja$odd@rc1.vub.ac.be>, gbottu@ben.vub.ac.be (Guy Bottu) wrote: > >> Does someone know of a software to predict T cell epitopes or >> maybe a public Server where a protein can be submitted to such >> a program ? >> >> Dr. Guy Bottu > Sure! > > A number of methods has been proposed and evaluated. One Mac program, > called T-sites, incorporates a number of such methods. > > It is freeware, and new versions could be obtained from the company where > the authors worked _at the time_. I tried to contact them for a new > version, but to no avail. > > I'll include the program in a personal e-mail to you, so I won't have to > overload newsservers all over the planet. If someone out here wishes to > get a copy, please let me know personally. > > Greetings to all > > Guy You can be just as lucky if you write the protein sequence on the piece of paper, close eyes and point finger somewhere on the written sequence. There are almost two hundred known human class I MHC molecules, even more class II molecules. The likelihood is that every, say, 15-mer peptide from within a protein will bind to some of the MHC variants and therefore be a candidate for a T-cell epitope. Prediction of peptide binding to a particular MHC molecule can be done and has been done reasonably well for HLA-A*0201, -A2401/02, -B2705, -B3501 and -DRB1*0401. Claims for solutions including some other alleles exist, but whether they were properly evaluated is unclear. Regards, Vladimir From owner-software@net.bio.net Sun May 04 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!data.ramona.vix.com!nnrp1.crl.com!a101020.sfo1.as.crl.com!user From: sunger@a.crl.com (Stefan Unger) Newsgroups: bionet.software Subject: Re: physiology software Date: Mon, 05 May 1997 09:11:29 -0700 Organization: BioSoftware Marketing Lines: 21 Message-ID: References: <5ki5vt$cnf$2@msunews.cl.msu.edu> NNTP-Posting-Host: a101020.sfo1.as.crl.com I believe there are some programs available at the BIO Online Store www.bio.com/mp/mp.html In article <5ki5vt$cnf$2@msunews.cl.msu.edu>, trier@pilot.msu.edu (Terry Trier) wrote: > I am looking for some physiological software (IBM) that can be used in > a comparative physiology lab class to simulate cellular and whole > organism processes. > -- Stefan Unger, Ph.D. BioSoftware Marketing 4151 Middlefield Rd, Ste 109 Palo Alto, CA 94303-4743 Marketing services from primary research to collateral design (http://www.bio.com/home/bsm/bsm.html) Product Manager, Scientific Software, Bio Online Store (www.bio.com) From owner-software@net.bio.net Sun May 04 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!uwm.edu!newsfeeds.sol.net!europa.clark.net!news-peer.sprintlink.net!news.sprintlink.net!Sprint!cpk-news-hub1.bbnplanet.com!cpk-news-feed1.bbnplanet.com!news.bbnplanet.com!nih.gov!usenet From: bernard@elsie.nci.nih.gov (Bernard Murray) Newsgroups: bionet.software Subject: Re: **Looking for good Sequence Analysis Software?** Date: 5 May 1997 03:57:24 GMT Organization: National Institutes of Health, Bethesda, MD Lines: 28 Message-ID: <5kjlr4$208@light.nih.gov> References: NNTP-Posting-Host: ermintrude.nci.nih.gov X-Newsreader: WinVN 0.99.7 In article , ahe4@cornell.edu says... > >I need a high quality program which will quickly align several human and >mouse genome sequences and highlight differences. The program will >probably have to err on the side of false positives so I don't miss any >sequence variants. Any hardware platform is fine. Does anybody have any >good suggestions? >Thanks >-- >---King of All College Students--- >"My arrogance extends only as far as my talent demands." >"We have a threesome every night.. > Me, my wife and my money"-Howard Stern How about running a full database search (BLAST etc.) using the most "important" sequence or group of sequences to allow you to choose the subset of the database that is interesting (you can decide the cutoff of significance) and then run Clustal, or your favourite alignment program, to line them all up? There was also a thread last week on choosing good "highlighting" programs. In my humble opinion Blast/FastA and ClustalW *are* "high quality" programs.... Bernard Bernard Murray, Ph.D. bernard@elsie.nci.nih.gov (National Cancer Institute, NIH, Bethesda MD, USA) From owner-software@net.bio.net Sun May 04 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!howland.erols.net!newsxfer.itd.umich.edu!news2.acs.oakland.edu!newsfeed.concentric.net!news-master!news From: Ketchup@cris.com (ketchup) Newsgroups: bionet.software Subject: Re: Allignements visualization Date: Mon, 05 May 1997 17:15:41 GMT Organization: Concentric Internet Services Lines: 42 Message-ID: <5kl4gq$c3l@chronicle.concentric.net> References: NNTP-Posting-Host: ts014d21.cup-ca.concentric.net X-Newsreader: Forte Free Agent 1.0.82 If your using a PC/Windows machine, have a look at GeneDoc. I think this will be what your looking for. http://www.cris.com/~ketchup/genedoc.shtml Karl Nicholas. (Matteo Turri) wrote: >Hi All, > I use Clustalw to align my protein sequences; I'm looking for a >software that provides flexible tool for sequences allignements >visualization, something that will shade the regions of similarity and >omology. >Thanks! >Matteo Turri >***************************************************** > Matteo Turri > Division of Clinical Chemistry and Biochemistry > University Children's Hospital > Steinwiesstrasse 75 > 8032 Zurich, Switzerland > Phone: +411 266 7547 > Fax: +411 266 7169 > e-mail: turrim@kispi.unizh.ch >***************************************************** From owner-software@net.bio.net Sun May 04 23:00:00 1997 From: UMT602@ibm.rhrz.uni-bonn.de (Dr. Ernst Molitor) Newsgroups: bionet.software Subject: Re: Gel analysis software Date: Mon, 05 May 97 07:56:12 MEZ Organization: RHRZ - University of Bonn (Germany) Lines: 35 Message-ID: <17B656FA8S85.UMT602@ibm.rhrz.uni-bonn.de> References: <336A35BA.142F@biobase.dk> NNTP-Posting-Host: ibm.rhrz.uni-bonn.de Path: biosci!rutgers.rutgers.edu!gatech!news1.mid-ga.com!nntp.mid-ga.com!news.oru.edu!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!news.apfel.de!news-fra1.dfn.de!news-koe1.dfn.de!RRZ.Uni-Koeln.DE!news.rhrz.uni-bonn.de!ibm.rhrz.uni-bonn.de!UMT602 In article <336A35BA.142F@biobase.dk> Marek Treiman writes: >Hello netters, > >Can anyone recommend a public domain/low cost software for analysis >of digitalized gel images? The commercial versions seem outrageously >expensive (2,000 $ and up)! > My suggestion would be to look into using DNA-GUI, a most impressive program written by Ken Clark, Washington University, St. Louis. This program has been written for the X Window environment; it reads digitized gel images (Tiff format), displays them, and offers many options, among them identifying bands in the gel, spatial normalization of the gel (using two or three marker lanes at appropriate positions), and writing all bands and the respective estimated molecular weights of the corresponding DNA into a file. Please point your WWW browser at http://www.ibc.wustl.edu/bcl/DNAGUI/dnagui_readme.html for the details. A port to Linux is available, two; it resides at ftp://ftp.rhrz.uni-bonn.de/pub/institute/meb/molbio/linux/... (ELF binaries, only). Regards, Ernst >Department of Medical Physiology The Panum Institute >University of Copenhagen Blegdamsvej 3C >Tel. +45-35327510 Fax +45-35327537 2200 Copenhagen N >E-mail mat@biobase.dk Denmark >. From owner-software@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!uunet!in3.uu.net!204.238.120.21!jump.net!grunt.dejanews.com!not-for-mail Date: Mon, 05 May 1997 19:11:17 -0600 From: eric.glemet@inria.fr Subject: New sofware for sequence comparison : LASSAP Newsgroups: bionet.software Message-ID: <862875442.2276@dejanews.com> Organization: INRIA To: eric.glemet@inria.fr X-Article-Creation-Date: Mon May 05 23:37:26 1997 GMT X-Originating-IP-Addr: 128.93.8.65 (pod.inria.fr) X-Http-User-Agent: Mozilla/2.0 (compatible; MSIE 3.01; Windows 95) X-Authenticated-Sender: eric.glemet@inria.fr Lines: 134 Keywords: sequence comparison, alignments, parallelism This is a general annoucement of Lassap release 1.0a available at: http://www-rocq.inria.fr/genome **************************************************** * LASSAP : LArge Scale Sequence compArison Package * **************************************************** LASSAP is a new software package for sequence comparison. LASSAP currently implements all major sequence comparison algorithms - Blast - Fasta, - Dynamic programming : Smith/Waterman, Needleman/Wunsch, K-best alignments - string matching (Mainly for redundancy problems) - pattern matching algorithms (e.g. search for PROSITE patterns). For the time being, all algorithms in LASSAP are pairwise based. Whatever a pairwise algorithm is used in LASSAP, it shares with all other algorithms numerous enhancements such as: (i) intra- and inter-databank comparisons ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (a databank can be a set of sequences choosen among a large databank or one sequence); (ii) computational requests ~~~~~~~~~~~~~~~~~~~~~~ (selections and computations are achieved on the fly); (iii) frame translations on queries and databanks ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (various genetic codes) (iv) structured results allowing easy and powerful post-analysis ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (LASSAP provides 3 different views of a result: . a full ASCII form, whith the alignment. . a compacted ASCII, one line for a pairwise result, allowing easy "grep", "awk" or "perl" filters . a structured form to perform some complex analysis such as clustering, etc.) (v) performance improvements by parallelization ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ and the driving of specialized hardware. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ( Two versions of LASSAP are available: . one sequencial for basic needs . one parallel to speed-up algorithms, and for large scale problems. LASSAP implements an optimized version of Smith/Waterman algorithm using SUN Visual Instruction Set [2]) For a programmer point of vue, LASSAP is a programmable, high-performance system designed to raise current limitations of sequence comparison programs in order to fit the needs of large-scale analysis. LASSAP provides an API (Application Programming Interface) allowing the integration of any generic pairwise-based algorithm. (The public API is not yet available, but it will be released as soon as possible) ________ Results: -------- LASSAP is both an integrated software for end-users and a framework allowing the integration and the combination of new algorithms. LASSAP is involved in different projects such as: - the building of PRODOM (http://protein.toulouse.inra.fr), - the exhaustive comparison of microbial genomes (Protein Science, Vol 6, Suppl 1, April 1997) - the subfragments matching problem of TREMBL. (Proceedings of ISMB 97 conference - June, Greece) A LASSAP server will be set up soon through a collaborative project between INRIA, INFOBIOGEN and CNUSC. ___________ References: ----------- [1] E. Glemet and JJ. Codani LASSAP, a LArge Scale Sequence compArison Package Cabios, Vol 13., No. 2, pp 137-143 (1997) [2] A. Wozniak Using Video Oriented Instructions to Speed-Up Sequence Comparison Cabios, Vol 13., No. 2, pp 145-150 (1997) _____________ Availability: ------------- LASSAP binaries release 1.0a are available for UNIX platforms (SGI, Solaris, AIX, Digital, ...). You can get documentation and binaries at the following address: http://www-rocq.inria.fr/genome For any request or feed-back please mail to: lassap@inria.fr or Eric.Glemet@inria.fr Adress: E. Glemet and JJ. Codani INRIA Rocquencourt, Domaine de Voluceau, BP 105, 78153 Le Chesnay Cedex, France -- ============================================================================== Eric GLEMET | Email : eric.glemet@inria.fr Institut National de Recherche | en Informatique et Automatique |Phone: +33 1 39 63 50 77 B.P. 105 |Fax: +33 1 39 63 53 30 78153 Le chesnay Cedex | France | ============================================================================== -------------------==== Posted via Deja News ====----------------------- http://www.dejanews.com/ Search, Read, Post to Usenet From owner-software@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!europa.clark.net!news-peer.gsl.net!uwm.edu!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Software for enzyme kinetics available Date: Mon, 05 May 1997 17:13:17 -0500 Organization: BioKin Consulting Lines: 9 Message-ID: <336E5B7D.4378@biokin.com> NNTP-Posting-Host: w14.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) An updated version of program DYNAFIT (Anal. Biochem. vol. 237, pp. 360-373, 1996) is available from http://www.biokin.com. This program performs nonlinear regression and simulation of enzyme (or receptor) kinetic data. -------------------------------------------------------------- Petr Kuzmic, Ph.D. * http://www.biokin.com B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708 voice 608.256.4790 * fax 608.256.1269 From owner-software@net.bio.net Mon May 05 23:00:00 1997 From: bss194@thunder (K.James) Newsgroups: bionet.software Subject: Re: Gel analysis software Date: 5 May 1997 12:25:39 GMT Organization: University of Wales, Bangor. Lines: 29 Message-ID: <5kkjk3$mq7@hydraulix.bangor.ac.uk> References: <336A35BA.142F@biobase.dk> NNTP-Posting-Host: thunder.bangor.ac.uk X-Newsreader: TIN [version 1.2 PL2] Path: biosci!rutgers.rutgers.edu!gatech!EU.net!Norway.EU.net!uninett.no!news-feed.inet.tele.dk!azure.xara.net!xara.net!peer.news.u-net.net!yama.mcc.ac.uk!hydraulix.bangor.ac.uk!thunder!bss194 Marek Treiman (mat@biobase.dk) wrote: : Hello netters, : Can anyone recommend a public domain/low cost software for analysis : of digitalized gel images? The commercial versions seem outrageously : expensive (2,000 $ and up)! : Tips greatly appreciated! I've heard of something called DNA-GUI which claims to be "A Graphical User Interface for Quantitative Imaging and Analysis of Electrophoretic Gels and Autoradiograms". I can't say how good it is since I haven't been able to get it to compile on my Linux box (though I think this is my inexperience, rather then a problem with the source). The DNA-GUI homepage is at: http://www.ibc.wustl.edu/bcl/DNAGUI/dnagui_home.html and there's a patch to get it to compile on Linux at: ftp://ftp.rhrz.uni-bonn.de/pub/institute/meb/molbio/linux/ The package appears to be Unix only. -- Keith James Ph.D. - k.james@bangor.ac.uk PGP 2.6.2i Key ID 469A9FA1 Biodegradation Group *Encrypt and Survive* School of Biological Sciences Nightmare: Quake me up now! University of Wales, Bangor, UK -------http://oracle.bangor.ac.uk/sbs/research/biodegradation/------- From owner-software@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!news.maxwell.syr.edu!news-peer.sprintlink.net!news.sprintlink.net!Sprint!howland.erols.net!newshub2.home.com!newshub1.home.com!news.home.com!news1.best.com!nntp2.ba.best.com!shellx!jquinn From: jquinn@best.com (Greg) Newsgroups: bionet.software Subject: Re: Molscript port to Linux? Date: 6 May 1997 19:48:41 GMT Lines: 10 Message-ID: <5ko1up$qmr$1@nntp2.ba.best.com> References: <336F59AF.F1832C9@virginia.edu> NNTP-Posting-Host: shellx.best.com X-Newsreader: TIN [version 1.2 PL2] John S Walker (jsw9c@virginia.edu) wrote: : G'day, : I recently obtained a liscensed copy of Molscript and am about to try to : port it to Linux. Has anybody else tried to port this software as I : don't want to go over old ground I have ported it to most all platforms including windows; if you have a problem with the fortran, try using 'f2c' and compiling in C, that always works for me. From owner-software@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!daresbury!bioftp.unibas.ch!news.vub.ac.be!feed1.belnet.be!news.belnet.be!surfnet.nl!howland.erols.net!ix.netcom.com!netcom.net.uk!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!charlie.lif.icnet.uk!not-for-mail From: Aengus Stewart Newsgroups: bionet.software Subject: FASTA max sequence length Date: Tue, 06 May 1997 17:20:25 +0100 Organization: Imperial Cancer Research Fund Lines: 15 Message-ID: <336F5A49.500F@icrf.icnet.uk> NNTP-Posting-Host: fingermouse.lif.icnet.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (X11; I; OSF1 V4.0 alpha) I have the docs for the multi-threaded version of FASTA 3.04 however I cannot find any info on the max query sequence, anyone know? I am worried about users throwing entire chromosomes/genomes at the data libraries. Aengus ---------------------------------------------------------------------- Aengus Stewart aengus.stewart@icrf.icnet.uk Bioinformatics Support UK Tel: (0171) 269 3679 Imperial Cancer Research Fund Lincoln's Inn Fields, Holborn, London, WC2A 3PX, UK ---------------------------------------------------------------------- From owner-software@net.bio.net Mon May 05 23:00:00 1997 Newsgroups: bionet.software Path: biosci!daresbury!bioftp.unibas.ch!news.vub.ac.be!feed1.belnet.be!news.belnet.be!feed2.belnet.be!news.belnet.be!news.rediris.es!news.uoregon.edu!hammer.uoregon.edu!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!cs.utexas.edu!news.eng.convex.com!newsgate.duke.edu!news-relay.ncren.net!hearst.acc.Virginia.EDU!murdoch!usenet From: John S Walker Subject: Molscript port to Linux? X-Nntp-Posting-Host: mars.med.virginia.edu Content-Type: text/plain; charset=us-ascii Message-ID: <336F59AF.F1832C9@virginia.edu> Sender: usenet@murdoch.acc.Virginia.EDU Content-Transfer-Encoding: 7bit Organization: University of Virginia Mime-Version: 1.0 Date: Tue, 6 May 1997 16:17:51 GMT X-Mailer: Mozilla 3.0 (X11; I; Linux 2.0.0 i486) Lines: 12 G'day, I recently obtained a liscensed copy of Molscript and am about to try to port it to Linux. Has anybody else tried to port this software as I don't want to go over old ground Regards John Walker Dept of Physiology University of Virginia From owner-software@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!biosci!not-for-mail From: eric.glemet@inria.fr (Eric Glemet) Newsgroups: bionet.software,fr.bio.genome,fr.bio.logiciel Subject: New software for sequence comparison : LASSAP Date: 6 May 1997 16:45:24 -0700 Organization: INRIA Lines: 132 Sender: daemon@net.bio.net Distribution: world Message-ID: <5kl6gd$482@news-rocq.inria.fr> Reply-To: eric.glemet@inria.fr (Eric Glemet) NNTP-Posting-Host: net.bio.net Keywords: sequence comparison, alignments, parallelism This is a general annoucement of Lassap release 1.0a available at: http://www-rocq.inria.fr/genome **************************************************** * LASSAP : LArge Scale Sequence compArison Package * **************************************************** LASSAP is a new software package for sequence comparison. LASSAP currently implements all major sequence comparison algorithms - Blast - Fasta, - Dynamic programming : Smith/Waterman, Needleman/Wunsch, K-best alignments - string matching (Mainly for redundancy problems) - pattern matching algorithms (e.g. search for PROSITE patterns). For the time being, all algorithms in LASSAP are pairwise based. Whatever a pairwise algorithm is used in LASSAP, it shares with all other algorithms numerous enhancements such as: (i) intra- and inter-databank comparisons ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (a databank can be a set of sequences choosen among a large databank or one sequence); (ii) computational requests ~~~~~~~~~~~~~~~~~~~~~~ (selections and computations are achieved on the fly); (iii) frame translations on queries and databanks ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (various genetic codes) (iv) structured results allowing easy and powerful post-analysis ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (LASSAP provides 3 different views of a result: . a full ASCII form, whith the alignment. . a compacted ASCII, one line for a pairwise result, allowing easy "grep", "awk" or "perl" filters . a structured form to perform some complex analysis such as clustering, etc.) (v) performance improvements by parallelization ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ and the driving of specialized hardware. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ( Two versions of LASSAP are available: . one sequencial for basic needs . one parallel to speed-up algorithms, and for large scale problems. LASSAP implements an optimized version of Smith/Waterman algorithm using SUN Visual Instruction Set [2]) For a programmer point of vue, LASSAP is a programmable, high-performance system designed to raise current limitations of sequence comparison programs in order to fit the needs of large-scale analysis. LASSAP provides an API (Application Programming Interface) allowing the integration of any generic pairwise-based algorithm. (The public API is not yet available, but it will be released as soon as possible) ________ Results: -------- LASSAP is both an integrated software for end-users and a framework allowing the integration and the combination of new algorithms. LASSAP is involved in different projects such as: - the building of PRODOM (http://protein.toulouse.inra.fr), - the exhaustive comparison of microbial genomes (Protein Science, Vol 6, Suppl 1, April 1997) - the subfragments matching problem of TREMBL. (Proceedings of ISMB 97 conference - June, Greece) A LASSAP server will be set up soon through a collaborative project between INRIA, INFOBIOGEN and CNUSC. ___________ References: ----------- [1] E. Glemet and JJ. Codani LASSAP, a LArge Scale Sequence compArison Package Cabios, Vol 13., No. 2, pp 137-143 (1997) [2] A. Wozniak Using Video Oriented Instructions to Speed-Up Sequence Comparison Cabios, Vol 13., No. 2, pp 145-150 (1997) _____________ Availability: ------------- LASSAP binaries release 1.0a are available for UNIX platforms (SGI, Solaris, AIX, Digital, ...). You can get documentation and binaries at the following address: http://www-rocq.inria.fr/genome For any request or feed-back please mail to: lassap@inria.fr or Eric.Glemet@inria.fr Adress: E. Glemet and JJ. Codani INRIA Rocquencourt, Domaine de Voluceau, BP 105, 78153 Le Chesnay Cedex, France -- ============================================================================== Eric GLEMET | Email : eric.glemet@inria.fr Institut National de Recherche | en Informatique et Automatique |Phone: +33 1 39 63 50 77 B.P. 105 |Fax: +33 1 39 63 53 30 78153 Le chesnay Cedex | France | ============================================================================== From owner-software@net.bio.net Tue May 06 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeed.nacamar.de!news.apfel.de!uni-erlangen.de!winx03!wpxx02!not-for-mail From: krasel@wpxx02.toxi.uni-wuerzburg.de (Cornelius Krasel) Newsgroups: bionet.software Subject: Re: Molscript port to Linux? Date: Wed, 7 May 1997 11:47:31 +0200 Organization: University of Wuerzburg, Germany Lines: 15 Message-ID: References: <336F59AF.F1832C9@virginia.edu> NNTP-Posting-Host: wpxx02.toxi.uni-wuerzburg.de X-Newsreader: TIN [UNIX 1.3 950824BETA PL0] John S Walker (jsw9c@virginia.edu) wrote: > I recently obtained a liscensed copy of Molscript and am about to try to > port it to Linux. Has anybody else tried to port this software as I > don't want to go over old ground It's not difficult. You have to twiddle a bit with the Makefiles and comment out two procedures in system.f (syrand and sytime) which are not used by molscript. --Cornelius. -- /* Cornelius Krasel, U Wuerzburg, Dept. of Pharmacology, Versbacher Str. 9 */ /* D-97078 Wuerzburg, Germany email: phak004@rzbox.uni-wuerzburg.de SP3 */ /* "Science is the game we play with God to find out what His rules are." */ From owner-software@net.bio.net Tue May 06 23:00:00 1997 Newsgroups: bionet.software Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!ais.net!ameritech.net!uunet!in3.uu.net!192.35.48.11!hearst.acc.Virginia.EDU!murdoch!usenet From: wrp@alpha0.bioch.virginia.edu (William R. Pearson) Subject: Re: FASTA max sequence length X-Nntp-Posting-Host: alpha0.bioch.virginia.edu Message-ID: Sender: usenet@murdoch.acc.Virginia.EDU Organization: University of Virginia X-Newsreader: Gnus v5.3/Emacs 19.34 References: <336F5A49.500F@icrf.icnet.uk> Date: Wed, 7 May 1997 02:37:52 GMT Lines: 17 For FASTA3, the maximum data length is set in the file defs.h, by MAXTST and MAXLIB. The maximum practical length is about MAXTST, 15000. However, your query sequence can initially be up to MAXTST+MAXLIB (15000+60000) and then you can select a subsequence, for example: cosmid.seq:1-20000 or cosmid.seq:35000-40000 Since FASTA currently reports only the once match from a query sequence, it is dangerous to give it too long a query sequence, as some lower scoring matches may be missed. Bill Pearson From owner-software@net.bio.net Tue May 06 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!www.nntp.primenet.com!nntp.primenet.com!europa.clark.net!feed1.news.erols.com!news-peer.sprintlink.net!news.sprintlink.net!Sprint!news-peer.gsl.net!news-paris.gsl.net!news.gsl.net!news.glo.be!usenet From: "Produktie KAISER" Newsgroups: ab.software.developers,alt.comp.software.financial,alt.geo-software,amiga.software,anhalt.computer.software,at.tuwien.software,att.software-dev,att.software-dev.metatool,bfm.programmers.software.bondcalc,bionet.software Subject: DISK DUPLICATION Date: 7 May 1997 14:50:39 GMT Organization: Customer of Globe Internet NV Lines: 9 Message-ID: <01bc5af5$d2aa6140$9cb130ce@eu000064.eunet.be> NNTP-Posting-Host: ip156.z02.glo.be X-Newsreader: Microsoft Internet News 4.70.1155 Is there any software or hardware available to duplicate NTFS formatted disks of different capacity ? Example: we want to duplicate a harddisk Seagate 1.3Gb with NT4.0 (NTFS) installed to another harddisk Quantum 2.1Gb. Thanks in advance. Mark Wouters From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!EU.net!news-peer.gsl.net!hammer.uoregon.edu!leto.ou.edu!news.ou.edu!news.ecn.uoknor.edu!munnari.OZ.AU!news.mel.connect.com.au!news.uwa.edu.au!newsman.murdoch.edu.au!usenet From: s.hoogland@student.murdoch.edu.au (IBM Aptiva Customer) Newsgroups: bionet.software Subject: BUSINESS IS BOOMING!! Date: Wed, 7 May 1997 06:11:28 +0800 Lines: 10 Message-ID: NNTP-Posting-Host: elvis.murdoch.edu.au X-Newsreader: Anawave Gravity v1.10 STAY HOME AND MAKE $3500/WEEK!!! MAKE $3500 A WEEK WITH YOUR COMPUTER.Earn money e-mailing letters for our company in your spare time from your own home. We can get you started today! reply for your FREE information disk. s.hoogland@student.murdoch.edu.au From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!news-out.communique.net!communique!hunter.premier.net!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.mindspring.com!usenet From: dbranth@mindspring.com (Don) Newsgroups: bionet.software Subject: Hiding Rows Based on CheckBox On or Off Date: Thu, 08 May 1997 06:50:30 GMT Organization: MindSpring Enterprises Lines: 57 Message-ID: <5krikc$7a4@camel3.mindspring.com> NNTP-Posting-Host: user-37kb9ib.dialup.mindspring.com X-Server-Date: 8 May 1997 03:51:40 GMT X-Newsreader: Forte Free Agent 1.0.82 I am using Excel 5/7 I have a spreadsheet called Sheet1 and a Dialog Box (Dialog1). The Dialog Box has 20 CheckBoxes on it When a user Checks a CheckBox, I would like the Corresponding Row to be visible. If it is unchecked, then I would like the row to be unhidden. I can do it individually, but have real trouble when it comes to looping through. Here is my code that is not quite there: Dialog1 and Sheet1 have been defined and Set For k = 1 To 20 If Dialog1.CheckBoxes(k) = xlOff Then Sheet1.Rows("k:k").EntireRow.Hidden = False ElseIf Dialog1.CheckBoxes(k) = xlOn Then Sheet1.Rows("k:k").EntireRow.Hidden = True End If Next k ===================================================== Also, - I have some code that works great for EditBoxes thanks to Jennifer Campion, but I have not been able to get it to work for DropDowns. Here is the code Dialog2 has been defined and set Dim i As Integer, Dim j As Integer, Dim Value5 As Integer Value5 = Dialog2.EditBoxes("InitialEditBox").Text For i = 1 To Dialog2.EditBoxes.Count Dialog2.EditBoxes(i).Visible = True Dialog2.DropDowns(i).Visible = True 'does not work Next i For j= 1 To Dialog2.EditBoxes.Count Dialog2.EditBoxes(j).Visible = False Dialog2.DropDowns(j).Visible = False 'does not work Next j ExpensesStep5.EditBoxes("InitialEditBox").Visible = True I am not sure why either of the two things do not work, but I would appreciate any help. Thanks in advance (once again and again) Don From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!news-out.communique.net!communique!hunter.premier.net!news.maxwell.syr.edu!feed1.news.erols.com!newsfeed.nacamar.de!blackbush.xlink.net!news-ge.switch.ch!news.bme.hu!not-for-mail From: Kiraly Andras Newsgroups: bionet.software Subject: The most simple visualizer? Date: Tue, 06 May 1997 13:29:56 -0700 Organization: Hungarian University of Physical Education Lines: 12 Message-ID: <336F94C4.446B@chaos.hupe.hu> NNTP-Posting-Host: chaos.hupe.hu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (X11; I; IRIX 5.3 IP22) Good morning/afternoon/evening for all! Which is the most simple molecular visualizer for 'pdb' files WITH SOURCE CODE (!). We'd like to see the visualization process, because we try to develop a converter from 'pdb' to 'real geometry'. I know so many visualizer software, but for this task I'd like to find the shortest way (of course). -- * Kiraly Andras * * http://www.hupe.hu/~andras * From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!cigb.edu.cu!Francisco.Alea From: Francisco.Alea@cigb.edu.cu ("Francisco P. Chavez") Newsgroups: bionet.software Subject: Mac Converter Software Date: 8 May 1997 05:03:01 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 13 Sender: daemon@net.bio.net Distribution: world Message-ID: <20D0C3D501D@serverdos.cigb.edu.cu> NNTP-Posting-Host: net.bio.net Dear all Could anyone suggest me a good software for convert Mac files in IBM PC files (i.e. Word processor, Spreadsheets, Databases and Graphics files), and if any of this software let me read Mac floppy disk. I've been using Conversion Plus V 2.51 from DataViz Inc., but is getting old. Thank in advances Francisco Chavez Center for Genetic Engineering and Biotechnology Bioindustry Division E-mail: Francisco.Alea@cigb.edu.cu From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!usc!sdd.hp.com!ihnp4.ucsd.edu!news1.ucsd.edu!not-for-mail From: rcaspi@popmail.ucsd.edu (Ron Caspi) Newsgroups: bionet.software Subject: Macaw files Date: Thu, 08 May 1997 20:42:51 GMT Organization: UCSD Lines: 5 Message-ID: <33723a4e.1195103468@news.ucsd.edu> NNTP-Posting-Host: helinski-203-156.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Newsreader: Forte Agent .99g/32.339 Hi, Is there a way to convert Macaw files to other formats, such as msf? Are there any programs that can read the Macaw files? I am mostly interested in programs running under Windows. Many thanks, From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!xfer.kren.nm.kr!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.nacamar.de!news.apfel.de!uni-erlangen.de!winx03!wpxx02!not-for-mail From: krasel@wpxx02.toxi.uni-wuerzburg.de (Cornelius Krasel) Newsgroups: bionet.software Subject: Re: The most simple visualizer? Date: Thu, 8 May 1997 17:29:47 +0200 Organization: University of Wuerzburg, Germany Lines: 15 Message-ID: References: <336F94C4.446B@chaos.hupe.hu> NNTP-Posting-Host: wpxx02.toxi.uni-wuerzburg.de X-Newsreader: TIN [UNIX 1.3 950824BETA PL0] Kiraly Andras (andras@chaos.hupe.hu) wrote: > Which is the most simple molecular visualizer for 'pdb' files WITH > SOURCE CODE (!). We'd like to see the visualization process, because we > try to develop a converter from 'pdb' to 'real geometry'. The source code for rasmol is available. What is "real geometry"? --Cornelius. -- /* Cornelius Krasel, U Wuerzburg, Dept. of Pharmacology, Versbacher Str. 9 */ /* D-97078 Wuerzburg, Germany email: phak004@rzbox.uni-wuerzburg.de SP3 */ /* "Science is the game we play with God to find out what His rules are." */ From owner-software@net.bio.net Wed May 07 23:00:00 1997 From: fourie@scientia.up.ac.za (Fourie Joubert) Newsgroups: bionet.software Subject: NCSA Gelreader Date: Thu, 08 May 1997 15:35:05 +0200 Organization: University of Pretoria Lines: 13 Message-ID: NNTP-Posting-Host: biomac.up.ac.za Path: biosci!rutgers.rutgers.edu!gatech!news1.mid-ga.com!nntp.mid-ga.com!news.oru.edu!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!howland.erols.net!quagga.ru.ac.za!ru.uni.net.za!uct.uni.net.za!csir.uni.net.za!news.up.ac.za!biomac.up.ac.za!user Hi Has anyone managed to get NCSA gelreader running on a Powermac? I have tried different versions, with and without FPU emulation, etc. but I keep getting lots of crashes... Please mail if possible, any help would be sincerely appreciated! Fourie Joubert Department of Biochemistry University of Pretoria From owner-software@net.bio.net Wed May 07 23:00:00 1997 Path: biosci!pdl.com!Lena_Govberg From: Lena_Govberg@pdl.com (Lena Govberg) Newsgroups: bionet.software Subject: software Date: 8 May 1997 16:50:42 -0700 Organization: Protein Design Labs, Inc. Lines: 9 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net I am looking for a software package which would inable me to analyze 4-6 similar sequences at once. We currentely use Seqed. However, one can only allign 2 sequences with this program. Also, if I am interested in creating a restriction map, I need to import my sequence into Gene Construction Kit, since it can draw circular maps very well. That program also has certain limitations. For example, I can not get a list of enzymes that only cut twice. Is there a better software package on the market? Please let me know.Thanx. My adress is: Lena_Govberg@pdl.com From owner-software@net.bio.net Thu May 08 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!ais.net!news.maxwell.syr.edu!newsfeed.nacamar.de!news.maz.net!news.is-europe.net!news.gni.net!rnima!gunhill.swb.de!reish Date: 07 May 1997 08:10:00 +0100 From: reish@gunhill.swb.de (Harry Reis) Newsgroups: bionet.software Message-ID: <6WOEA2Os0LB@gunhill.swb.de> Subject: Search IPG-Calculator X-Newsreader: CrossPoint v3.11 R/C1234 Lines: 18 Message vom 01.03.97 erneut versandt: Message written on 01.03.97 at 21:48 Hi, does somebody now a ftp-address where I can find a program to calculate the recipes for different immobiline gradients. As far as I know there is a program called "gradient-maker" or so. ... see you later aligator Harry From owner-software@net.bio.net Thu May 08 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!news-out.communique.net!communique!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!howland.erols.net!news.nacamar.de!not-for-mail From: snk Newsgroups: bionet.software Subject: http://www.geocities.com/Baja/7839/ Date: Fri, 09 May 1997 01:09:53 +0200 Organization: Nacamar Data Communications Lines: 1 Message-ID: <33725D41.124F@emails.com> Reply-To: snk@emails.com NNTP-Posting-Host: excalibur.globe.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0C-nnie30 (Win95; U) http://www.geocities.com/Baja/7839/ From owner-software@net.bio.net Thu May 08 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!newsfeed.nacamar.de!news.apfel.de!uni-erlangen.de!lrz-muenchen.de!wap1.zi.biologie.uni-muenchen.de!salger From: salger@wap1.zi.biologie.uni-muenchen.de (Klaus Salger) Newsgroups: bionet.software Subject: Re: Hiding Rows Based on CheckBox On or Off Date: 9 May 1997 03:17:57 GMT Organization: [posted via] Leibniz-Rechenzentrum, Muenchen (Germany) Lines: 44 Distribution: world Message-ID: <5ku515$58g$1@sparcserver.lrz-muenchen.de> References: <5krikc$7a4@camel3.mindspring.com> NNTP-Posting-Host: wap1.zi.biologie.uni-muenchen.de X-Newsreader: TIN [version 1.2 PL2] Don (dbranth@mindspring.com) wrote: : I am using Excel 5/7 : I have a spreadsheet called Sheet1 and a Dialog Box (Dialog1). The : Dialog Box has 20 CheckBoxes on it : When a user Checks a CheckBox, I would like the Corresponding Row to : be visible. If it is unchecked, then I would like the row to be : unhidden. : I can do it individually, but have real trouble when it comes to : looping through. : Here is my code that is not quite there: : Dialog1 and Sheet1 have been defined and Set : For k = 1 To 20 : If Dialog1.CheckBoxes(k) = xlOff Then : Sheet1.Rows("k:k").EntireRow.Hidden = False : : ElseIf Dialog1.CheckBoxes(k) = xlOn Then : Sheet1.Rows("k:k").EntireRow.Hidden = True : : End If : Next k Don, this doesn't work because you put the variable k in quotation marks which prevents it from beeing evaluated (and there is no row "k"). Just replace ("k:k") by (k & ":" & k). Cheers Klaus -- Klaus Salger phone : +49 (0)89 5902 -502 Zoologisches Institut FAX : -450 AG Wetterauer e-mail: salger@zi.biologie.uni-muenchen.de Luisenstr. 14 80333 Muenchen Germany BioLinks: http://www.zi.biologie.uni-muenchen.de/~salger/salger.html From owner-software@net.bio.net Thu May 08 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeed.nacamar.de!ix.netcom.com!enews.sgi.com!news.corp.sgi.com!news.sgi.com!csulb.edu!hammer.uoregon.edu!news.algonet.se!news.algonet.se!news From: "somusic" Newsgroups: bionet.software Subject: soundforge plugins Date: 9 May 1997 22:19:47 GMT Organization: AlgoNet Public Access Node, Stockholm Lines: 3 Message-ID: <01bc5cc6$ba1130a0$ac5c64c3@default> NNTP-Posting-Host: du172-92.ppp.algonet.se NNTP-Posting-User: bddc98933f39c5be593c87732e2a5b740 X-Newsreader: Microsoft Internet News 4.70.1155 I'm looking for plugins to Soundforge 4.0 PC can anuone tell me where to find it? somusic@algonet.se From owner-software@net.bio.net Thu May 08 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news.maxwell.syr.edu!disgorge.news.demon.net!demon!dispatch.news.demon.net!demon!fido.news.demon.net!demon!newsgate.unisource.nl!halley.pi.net!news From: renemul@pi.net (Rene Mullie) Newsgroups: bionet.software Subject: video infochannel software?? Date: Fri, 09 May 1997 09:46:41 GMT Organization: Newformation Message-ID: <3372f253.9370253@news.pi.net> NNTP-Posting-Host: 145.220.207.50 X-Newsreader: Forte Free Agent 1.1/32.230 Lines: 44 Software demands for digital video board system We are looking for software to control a digital video board system. On different locations are monitors installed. On these monitors runs a digital video program, based on different inputformats like MPEG files, data fields, graphic files and combinations of these two. This system must be controlled from one central computer by ISDN connections. The broadcast wil be uploaded to the differend locations and wil run according to the scheduling file. We know the Scala software but this is not wat we are looking for. Please let me know if you know a company who can provide us with these kind of software. Please reply to me personal. -compleet inhouse informationsystem at broadcast quality -supports: video (MPEG-1 and 2, QuikTime, AVI, FLIC) standard MCI protocol graphic formats: BMP, GIF, PCX, TGA, LBM, RLE, WMF, DIB text formats: ASCII, HTML, DOC, WP -scheduling for every message or file -absolute timing of message/file planning -network integration in TCP/IP, Novell, Windows95/NT networks -importing and exporting of different file formats -extended preview options for previewing the program -logfile of all actions -multi-user -large library of special effects -WYSIWYG style editor to make templates From owner-software@net.bio.net Fri May 09 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!vixen.cso.uiuc.edu!uwm.edu!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Which newgroups are similar to bionet.software? Date: Fri, 09 May 1997 21:02:49 -0500 Organization: BioKin Consulting Lines: 19 Message-ID: <3373D749.3263@biokin.com> NNTP-Posting-Host: p20.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) What other newsgroups would you people reading 'bionet.software' recommend to someone reading Biochemistry J. Biol. Chem. Biochem. J. J. Theor. Biol. Biophys. J. Anal. Biochem. B.B.R.C. J. Amer. Chem. Soc. and a few others? (I mean, someone who scans the title pages of all the above.) Let us say, a 'quantitative biochemist' with background in organic, bioorganic, and physical chemistry? Thanks. P.K. From owner-software@net.bio.net Fri May 09 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!news-peer.sprintlink.net!news.sprintlink.net!Sprint!howland.erols.net!vixen.cso.uiuc.edu!uwm.edu!newsspool.doit.wisc.edu!news.itis.com!not-for-mail From: Petr Kuzmic Newsgroups: bionet.software Subject: Program DYNAFIT for analysis of kinetic data Date: Fri, 09 May 1997 20:43:01 -0500 Organization: BioKin Consulting Lines: 20 Message-ID: <3373D2A5.5140@biokin.com> NNTP-Posting-Host: p20.itis.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) Program DYNAFIT (analysis and simulation of kinetic data) homepage http://biokin.com/dynafit.htm was updated. Please note that DYNAFIT now automatically determines confidence intervals for rate constants. Just use two questions marks instead of one: [mechanism] E + S <===> ES : k1 k2 ES ---> E + P : k3 [rate constants] k1 = 100, k2 = 10 ??, k3 = 1 ?? One question mark means "determine the best-fit value". Two question marks means "determine also 68% confidence interval" by a systematic search in the parameter space. -------------------------------------------------------------- Petr Kuzmic, Ph.D. * http://www.biokin.com B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708 voice 608.256.4790 * fax 608.256.1269 From owner-software@net.bio.net Fri May 09 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!feed1.news.erols.com!news.ecn.uoknor.edu!news.cis.okstate.edu!osuunx.ucc.okstate.edu!harding From: "Mr. Harding" Newsgroups: bionet.software,bionet.softwaree.sources,rec.audio.misc,rec.music.collecting.cd,rec.music.funky,rec.music.collecting.misc,rec.music.hip-hop,rec.music.marketplace.cd,rec.music.misc,rec.music.marketplace.misc Subject: !!!FREE CD'S AND SOFTWARE!!! Date: Fri, 9 May 1997 21:44:19 -0500 Organization: Oklahoma State University, Stillwater OK Lines: 5 Message-ID: NNTP-Posting-Host: osuunx.ucc.okstate.edu Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Xref: biosci bionet.software:18565 rec.audio.misc:35272 rec.music.collecting.cd:7603 rec.music.funky:29682 rec.music.collecting.misc:5041 rec.music.hip-hop:83178 rec.music.marketplace.cd:35617 rec.music.misc:108909 rec.music.marketplace.misc:20734 Would you be interested in a way to get FREE MUSIC CD's AND CD-ROM Software AND make some MONEY? For details, email me at dj808@hotmail.com From owner-software@net.bio.net Fri May 09 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!europa.clark.net!ais.net!newsfeed.concentric.net!news-master!news From: dantso@cris.com (Daniel Ts'o) Newsgroups: bionet.molbio.methds-reagnts,bionet.software Subject: F.I.S.H. (Automated analysis ?) Date: Sat, 10 May 97 23:04:47 GMT Organization: The Rockefeller University Lines: 18 Message-ID: <5l2v2a$cd4@chronicle.concentric.net> NNTP-Posting-Host: crc4.cris.com X-Newsreader: News Xpress Version 1.0 Beta #4 Xref: biosci bionet.molbio.methds-reagnts:57520 bionet.software:18570 I would appreciate pointer on how to learn about the state of the art in FISH automated analysis, including computerized slide scanning, chromosome and other cellular fluorescent marker recognition and counting, auto focussing methods, etc. Thanks. Cheers, Dan Ts'o The Rockefeller University Box 138 1230 York Avenue New York, NY 10021 dantso@cris.com 212-327-7671 212-327-7671 FAX From owner-software@net.bio.net Sat May 10 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!bunyip.cc.uq.edu.au!news.design.net.au!news From: ashby@pdo.net.au (IBM Aptiva Customer) Newsgroups: bionet.software Subject: VALUBLE INFORMATION! Date: Sat, 10 May 1997 02:30:16 +0800 Organization: Design OnLine, AsiaPacific Lines: 29 Message-ID: NNTP-Posting-Host: perth66.design.net.au X-Newsreader: Anawave Gravity v1.10 MULTICOM INFORMATION BROKERS. Stephen Ashby : ashby@pdo.net.au HOW TO- INFORMATION REPORTS! Available on PAPER,PC DISK and VIA EMAIL. I have a complete set of 50 HOW TO -INFORMATION REPORTS. My Reports include the following : (1) HOW TO WRITE ORDER PULLING ADS. (2) MAKING MILLIONS! (3) HOW TO START YOUR OWN HOMEBASED BUSINESS! Plus many many more. How much would you expect to pay for these reports?... $50....$40. No you can have these reports for only $29.95 each $AUS. Plus if you act know you will receive ONE FREE REPORT. THATS TWO FOR THE PRICE OF ONE! ACT NOW! HURRY LIMITED TIME ONLY!!. RUSH CHEQUE OR MONEY ORDER (IN AUSTRALIAN DOLLARS) TO : MULTICOM INFORMATION BROKERS UNIT 24/181 CAMBRIDGE STREET WEMBLEY,6014. PERTH,WESTERN AUSTRALIA,AUSTRALIA. e-mail : ashby@pdo.net.au From owner-software@net.bio.net Sat May 10 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!newsfeed.nacamar.de!fu-berlin.de!scan.wittig.grumed.fu-berlin.DE!not-for-mail From: alfken@zedat.mit.edu (Jens Alfken) Newsgroups: bionet.software Subject: findpatterns on the WEB ? Date: 11 May 1997 15:45:49 GMT Organization: Freie Universitaet Berlin Lines: 10 Sender: -Not-Authenticated-[3117] Message-ID: <5l4pjd$psl@fu-berlin.de> NNTP-Posting-Host: scan.wittig.grumed.fu-berlin.de (160.45.15.8) X-Access: 16 17 19 X-Posted-From: InterNews 1.1@scan.wittig.grumed.fu-berlin.de Xdisclaimer: No attempt was made to authenticate the sender's name. Hi, just lost my access to a server running the GCG packgage :( Is there any Website that would allow a protein sequence search using degenerate sequences like the findpattern program in GCG does ? Jens Alfken alfken@zedat.fu-berlin.de From owner-software@net.bio.net Sat May 10 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!disgorge.news.demon.net!demon!dispatch.news.demon.net!demon!wols.demon.co.uk!not-for-mail From: nick_owen@wols.demon.co.uk (Nicholas Owen) Newsgroups: bionet.software Subject: Windows Software for Sequence Analysis? Date: Sun, 11 May 1997 23:49:41 GMT Message-ID: <33765a84.10401964@news.demon.co.uk> NNTP-Posting-Host: wols.demon.co.uk X-NNTP-Posting-Host: wols.demon.co.uk [158.152.50.79] X-Newsreader: Forte Agent 1.0/32.390 MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 11 We use GCG at work but to save me logging in from home I would like to analyse my sequences on a Windows machine. Does anyone know of a programme(s) that can align multiple sequences, translate, map, reverse etc sequences under Windows? Any information much appreciated Nicholas Owen From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: 12 May 1997 12:39:30 GMT Organization: Biology, Indiana University - Bloomington Lines: 6 Message-ID: <5l7322$ihq$1@dismay.ucs.indiana.edu> References: <33765a84.10401964@news.demon.co.uk> <5l72v3$ihk$1@dismay.ucs.indiana.edu> NNTP-Posting-Host: chipmunk.bio.indiana.edu Sorry for the short url, I meant to write: See ftp://iubio.bio.indiana.edu/molbio/seqpup/ -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!CS.Arizona.EDU!news.Arizona.EDU!uunet!in3.uu.net!129.240.148.41!nntp.uio.no!uninett.no!news.uni-c.dk!news.daimi.aau.dk!not-for-mail From: Roald Forsberg Newsgroups: bionet.software Subject: Re: OS/2 or Windows 3.x Software to build plasmids Date: Mon, 12 May 1997 12:38:07 +0200 Organization: Institute of Mathematics, University of Aarhus Lines: 25 Message-ID: <3376F30F.61DE@mi.aau.dk> References: <5kvgq8$ea2@n.ruf.uni-freiburg.de> NNTP-Posting-Host: elrond.mi.aau.dk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (X11; I; HP-UX B.10.20 9000/780) Bernhard Kleine wrote: > > Hi thereout, > > while MAC software for the presentation of Plasmids, sequences, etc looks to be available > anywhere, I have difficulties to find shareware or commercial software running on a PC. > Win 95 may also be possible, but for the time to be I would prefer OS/2 or windows > software. > > Any suggestions are welcome! Felsensteins list of phylogeny related software is a good place to start your search: http://evolution.genetics.washington.edu/phylip/software.html Good luck -- Roald Forsberg Department of Genetics and Ecology University of Aarhus 8000 Arhus C Denmark From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!agate!blanket.mitre.org!news.tufts.edu!usenet.logical.net!news.wizvax.net!netcom.net.uk!btnet!rill.news.pipex.net!pipex!newsfeed.nacamar.de!blackbush.xlink.net!news-ge.switch.ch!feed2.belnet.be!news.belnet.be!news.vub.ac.be!imol.vub.ac.be!philstas From: philstas@ultr5.vub.ac.be (Philippe Stas) Newsgroups: bionet.software Subject: Topfit 2.0 Software? Date: 12 May 1997 11:44:06 GMT Organization: Molecular Biology Institutes - Free Universities of Brussels Lines: 12 Message-ID: <5l6vq6$5ee@imol2.vub.ac.be> NNTP-Posting-Host: ultr6.vub.ac.be X-Newsreader: TIN [version 1.2 PL2] Hi, Anyone out there hear about the TopFit software, some curve fitting program? Is this freeware, or is there actually a company selling it (did not find in Yahoo nor HotBot) Thanks for helping me out Philippe Stas ULTR - Free University Brussels From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!vixen.cso.uiuc.edu!uwm.edu!msunews!netnews.upenn.edu!ts3-31.upenn.edu!user From: BIOMEDCOMP@aol.com (BioMedical Computers, Inc.) Newsgroups: bionet.software Subject: ** Research and Thesis Support ** Date: Mon, 12 May 1997 19:12:31 -0400 Organization: BioMedical Computers, Inc. Lines: 30 Message-ID: NNTP-Posting-Host: ts3-31.upenn.edu Research and Thesis Support * Statistical Analysis * Data Entry * Computer Programming * Graphical Presentations * Experimental Design * Proposal Assistance * Manuscript Preparation Research often involves significant and collaborative efforts. Let our staff of biostatisticians, psychometricians, and computer professionals assist you in your research efforts. FREE INITIAL CONSULTATION BioMedical Computer Research Institute, Inc. Since 1984 Philadelphia, PA Phone: (215) 676-9743 Fax: (215) 676-0799 Email: BIOMEDCOMP@aol.com From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!gatech!news-relay.ncren.net!hearst.acc.Virginia.EDU!mercury.vcu.edu!topaz.vcu.edu!topaz.vcu.edu!nntp Newsgroups: bionet.software Subject: Looking for MENDEL error checking software Message-ID: <33779925.6D08@scientist.com> From: Max Myakishev Date: Mon, 12 May 1997 16:26:45 -0600 Nntp-Posting-Host: 128.172.85.18 X-Mailer: Mozilla 3.01Gold (WinNT; I) MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 4 I am doing large scale genotyping. Can anyone recommend a program to look for MENDEL ERRORS in genotypes? Max Myakishev Max@scientist.com From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!daily.bbnplanet.com!cfoeller From: cfoeller@bbn.com (Carl Foeller) Newsgroups: bionet.software Subject: ANNOUNCE: Prophet for Windows NT/95 -- 60 day demo available Date: 12 May 1997 18:40:04 GMT Organization: BBN Systems and Technologies Lines: 47 Message-ID: <5l7o64$mnr$1@daily.bbnplanet.com> NNTP-Posting-Host: dna.bbn.com Keywords: NIH, BBN; Prophet Software; biology, medicine, clinical, statistics, sequence, graphs, data management, mathematical modeling, biomedical The National Institutes of Health and BBN Systems and Technologies announce the availability of Prophet 5.0 for Windows NT and 95. A copy may be downloaded for a free 60 day evaluation from our Web site. Prophet 5.0 is a software package that gives life science researchers a wide range of computing capabilities. Prophet offers advanced, easy-to-use software tools for data management and visualization, and statistical analysis - from simple descriptive statistics to multi-factor ANOVA, logistic regression, and non-linear modeling. Prophet 5.0 also offers tools for analyzing biological sequences, including multiple sequence alignment, translation, restriction enzyme and proteolytic cleavage analyses, PCR primer design, BLAST searches, remote database retrievals, and more. See our web pages (http://www-prophet.bbn.com) for more complete descriptions and examples of Prophet's capabilities. Download a fully functional copy of Prophet 5.0 from our web site (http://www-prophet.bbn.com) and try it for free for 60 days.* International guests should send email to prophet-info@bbn.com for additional instructions. Prophet 5.0 will be available soon for these UNIX platforms: Sun/Solaris 2.4, DEC Alpha/Digital UNIX, and Silicon Graphics/IRIX 6.2. If you need additional information or have questions regarding Prophet, call us on the Prophet Hotline (800) 940-0103 or send electronic mail to prophet-info@bbn.com. The Prophet Software Group at BBN Systems and Technologies 10 Moulton Street M/S 6/2A Cambridge, MA 02138 USA -------------- Prophet is sponsored by the National Center for Research Resources at the National Institutes of Health (NIH). The NIH sponsors the continuing improvement of the Prophet System as part of its effort to promote advancement in the life sciences, in research, and in the application of biotechnology. *Prophet 5.0 is non-profit software developed by BBN under contract to the NIH. From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!newsxfer3.itd.umich.edu!newsxfer2.itd.umich.edu!srvr1.engin.umich.edu!news.cc.ukans.edu!usenet From: PGegen@kuhub.cc.ukans.edu (Dr. Peter Gegenheimer) Newsgroups: bionet.software Subject: Re: OS/2 or Windows 3.x Software to build plasmids Date: 12 May 1997 17:12:28 GMT Organization: University of Kansas, Dept. of Biochemistry, Cell, and Molecular Biology Lines: 24 Message-ID: <5l7j1s$mef@raven.cc.ukans.edu> References: <5kvgq8$ea2@n.ruf.uni-freiburg.de> <3376F30F.61DE@mi.aau.dk> Reply-To: !PGegen@UKans.edu (Dr. Peter Gegenheimer) NNTP-Posting-Host: rnaworld.bio.ukans.edu X-Newsreader: IBM NewsReader/2 2.0 In <3376F30F.61DE@mi.aau.dk>, Roald Forsberg writes: >Bernhard Kleine wrote: >> >> Hi thereout, >> >> while MAC software for the presentation of Plasmids, sequences, etc looks to be available >> anywhere, I have difficulties to find shareware or commercial software running on a PC. >> Win 95 may also be possible, but for the time to be I would prefer OS/2 or windows >> software. For WIndows, try Clone Manager (SciEd Software, demo available from http://www.scied.com/). Excellent, graphically-oriented, easy-to-use, and better than most Mac software. The WIn 3.1 version runs smoothly under Win-OS/2. FOr native OS/2, the only thing right now is FirstBase, a very simple -- and free -- sequence editor/ORF finder/translations (contact rhughes@ucsd.edu; I forget the web address). FIrstBase is now bundled with LiCOR DNA sequencers. It will help the cross-platform cause if you let SciEdSoft know that you're interested in software developed with the Open32 API (which allows cross-compilation between Windows NT and OS/2). o-----------------------------------------------------------------------o | Dr. Peter Gegenheimer | Vox: 913-864-3939 FAX: 913-864-5321 | | Departments of Biochemistry | PGegen@UKans.edu | | and of Botany | http://rnaworld.bio.ukans.edu/ | | | | | University of Kansas | | | 2045 Haworth Hall | "The sleep of reason produces | | Lawrence KS 66045-2106 | monsters." Goya | o______________________________|________________________________________o From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!news-was.dfn.de!news-kar1.dfn.de!news-stu1.dfn.de!news.belwue.de!news.uni-freiburg.de!inn From: bkleine@ruf.uni-freiburg.de (Bernhard Kleine) Newsgroups: bionet.software Subject: OS/2 or Windows 3.x Software to build plasmids Date: 9 May 1997 15:45:12 GMT Organization: Inst. f. Immunbiologie Lines: 14 Distribution: world Message-ID: <5kvgq8$ea2@n.ruf.uni-freiburg.de> Reply-To: bkleine@ruf.uni-freiburg.de NNTP-Posting-Host: kleine.immunbiologie.uni-freiburg.de Mime-Version: 1.0 Content-Type: text/plain; charset="us-ascii" Content-Transfer-Encoding: 7bit X-Newsreader: NeoLogic News for OS/2 [version: 4.5d UNREGISTERED -172 days remaining] Hi thereout, while MAC software for the presentation of Plasmids, sequences, etc looks to be available anywhere, I have difficulties to find shareware or commercial software running on a PC. Win 95 may also be possible, but for the time to be I would prefer OS/2 or windows software. Any suggestions are welcome! Bernhard Kleine Institute for immunobiology University of Freiburg From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!chippy.visi.com!news-out.visi.com!newsfeed.direct.ca!news.uoregon.edu!news.acsu.buffalo.edu!newsstand.cit.cornell.edu!NewsWatcher!user From: kk60@cornell.edu (Kiho Kim) Newsgroups: bionet.software Subject: similarity matrix software Date: Mon, 12 May 1997 10:15:53 -0400 Organization: Cornell University Lines: 8 Sender: kk60@cornell.edu (Verified) Message-ID: NNTP-Posting-Host: 132 X-newsreader: MT-NewsWatcher 2.2.2 Hi All: Does anyone know of any mac software (freeware, preferably) that will calculate similarity indices based on molecular data (ie. presence or absense of bands)? -- Kiho Kim (kk60@cornell.edu) Ecology & Systematics Cornell University From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!gondor!sol.ctr.columbia.edu!news.columbia.edu!panix!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: 12 May 1997 12:37:55 GMT Organization: Biology, Indiana University - Bloomington Lines: 8 Message-ID: <5l72v3$ihk$1@dismay.ucs.indiana.edu> References: <33765a84.10401964@news.demon.co.uk> NNTP-Posting-Host: chipmunk.bio.indiana.edu SeqPup is available for free for this. See ftp://iubio.bio.indiana.edu/. Note - the current version has bugs, but a number of people find it useful on MSWindows systems (or mac or xwindows). - Don -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!bunyip.cc.uq.edu.au!news.design.net.au!news From: ashby@pdo.net.au (IBM Aptiva Customer) Newsgroups: bionet.software Subject: BUSINESS IS BOOMING! Date: Sat, 10 May 1997 20:37:21 +0800 Organization: Design OnLine, AsiaPacific Lines: 19 Message-ID: NNTP-Posting-Host: perth65.design.net.au X-Newsreader: Anawave Gravity v1.10 ashby@pdo.net.au !!! STAY AT HOME AND MAKE $3,500/WEEK !!! Make $3,500/week with your computer.Earn money e-mailing letters for our company in your spare time from your own home. We can get you started today! Reply for your FREE information disk. Send for FREE disk via e-mail or normal mail. Please indicate whether to be sent via e-mail or mail. Send to : ashby@pdo.net.au From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!MARLIN.UTMB.EDU!jpiper From: jpiper@MARLIN.UTMB.EDU (John Piper) Newsgroups: bionet.software Subject: Re: OS/2 or Windows 3.x Software to build plasmids Date: 12 May 1997 08:04:03 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: <3.0.32.19970512100000.006a9270@marlin.utmb.edu> NNTP-Posting-Host: net.bio.net A while back, I downloaded a program called Plasmid Processor. I have not had a chance to use it extensively, but from the little bit that I have used it, the software seems pretty nice. I am pretty sure that it is still Freeware (at least according to the developers home page). Try: http://www.hytti.uku.fi/~kiviraum/plasmid/plasmid.html I have not used any "commercial" programs, so I don't know how this program compares. Hope this helped, John At 03:45 PM 5/9/97 GMT, Bernhard Kleine wrote: >Hi thereout, > >while MAC software for the presentation of Plasmids, sequences, etc looks to be available >anywhere, I have difficulties to find shareware or commercial software running on a PC. >Win 95 may also be possible, but for the time to be I would prefer OS/2 or windows >software. > >Any suggestions are welcome! > >Bernhard Kleine >Institute for immunobiology >University of Freiburg > > > > > **************************************************************************** **** John Piper jpiper@marlin.utmb.edu Graduate Student Phone: 409-772-6537 Department of Human Biological Fax: 409-772-6603 Chemistry and Genetics Soon to come: The University of Texas Medical Branch http://marlin.utmb.edu/~jpiper Galveston, TX 77555-1067 **************************************************************************** **** From owner-software@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!bunyip.cc.uq.edu.au!news.design.net.au!news From: ashby@pdo.net.au (IBM Aptiva Customer) Newsgroups: bionet.software Subject: BUSINESS IS BOOMING! Date: Mon, 12 May 1997 13:17:35 +0800 Organization: Design OnLine, AsiaPacific Lines: 62 Message-ID: NNTP-Posting-Host: perth67.design.net.au X-Newsreader: Anawave Gravity v1.10 >WANTED : 25 INDEPENDENT AGENTS TO WORK ONLINE... >PART OR FULL TIME FROM THEIR HOMES. FIRST YEAR'S >POTENTIAL EARNINGS $175,000 TO $395,000 AND MORE. > >Dear friend : > >How would you like to know what it's like to have a bank account >that grows...and grows...AND GROWS? > >We are in the software business and business is growing VERY FAST! > >We are offering YOU the occasion to join us in this explosive growth and >make >tons of money placing inexpensive small classified ads in newspapers or >BBS's >and giving away FREE COMPUTER DISKS.Please note that these ads are >already written and 100% tested. > >Succeed and achieve your objectives... NOW!!!... > >With this program you can earn over $3,500 per week or more on a steady >part time basis.And best of all,you won't need special >abilty,knowledge,or >experience.All you really need is a computer and to follow the simple >instructions that come with your start-up package. > >With this 100% "turn-key" program you will start your own business,with >very little >or no initial investment and immediately generate profit! > >No face to face!...No telephone!...Very little cash investment! Your only >contact >is by mail,fax or online.No personal selling in order to make money.All >you have >to do is advertise a FREE disk and send it to your qualified prospects >and you'll >make money And unlike other companies you will get almost the entirety of >the >profit! That is why our agents have a potential.... > >REVENUE OF $175,000/YR AND MORE. > >And they work only a couple of hours a WEEK! Now YOU TOO can realise > these same exceptional results! that's not all , when you join us as an >independent agent >you receive monetary advantages that know one else will give you! > >Stephen Ashby ashby@pdo.net.au> >GET YOUR FREE INFORMATION DISK BY MAIL,E-MAIL. > If you prefer by mail reply with name and address. >If you prefer we can E-MAIL you a zip file (395 782 bytes) NOW! >With this beautifully done software you'll have all the information you >need >to make a good decision TODAY! > >Reply for FREE information disk to >Stephen Ashby. ashby@pdo.net.au From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsxfer3.itd.umich.edu!portc01.blue.aol.com!spamz.news.aol.com!audrey02.news.aol.com!not-for-mail From: haroldb786@aol.com (HaroldB786) Newsgroups: bionet.software Subject: Re: **Looking for good Sequence Analysis Soft Date: 13 May 1997 04:14:13 GMT Organization: AOL http://www.aol.com Lines: 4 Message-ID: <19970513041300.AAA10689@ladder01.news.aol.com> References: NNTP-Posting-Host: ladder01.news.aol.com X-Admin: news@aol.com http://www.cris.com/~ketchup/genedoc.shtml will give theprogram to illustrate the alignments from clustalw..... harold From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!europa.clark.net!newsxfer3.itd.umich.edu!portc01.blue.aol.com!audrey02.news.aol.com!not-for-mail From: haroldb786@aol.com (HaroldB786) Newsgroups: bionet.software Subject: Re: Allignements visualization Date: 13 May 1997 04:12:16 GMT Organization: AOL http://www.aol.com Lines: 9 Message-ID: <19970513041000.AAA10578@ladder01.news.aol.com> References: <5k6rat$6me@news.u-strasbg.fr> NNTP-Posting-Host: ladder01.news.aol.com X-Admin: news@aol.com GeneDoc is a very nice piece of software.. /www.cris.com/~ketchup/genedoc.shtml Change the output of clustalw to msf (#3). This program will show differences in shades or the different base.... hard to explain, easy program to use. good luck, harold From owner-software@net.bio.net Mon May 12 23:00:00 1997 From: "Victor Jongeneel" Subject: Re: findpatterns on the WEB ? Newsgroups: bionet.software Reply-To: "Victor Jongeneel" References: <5l4pjd$psl@fu-berlin.de> Organization: Ludwig Institute Message-ID: <01bc5f5d$2618fba0$32c52ac0@pcisrec-c302.unil.ch> X-Newsreader: Microsoft Internet News 4.70.1155 NNTP-Posting-Host: pcisrec-c302.unil.ch Date: 13 May 97 05:19:20 GMT Lines: 21 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!surfnet.nl!news-zh.switch.ch!swidir.switch.ch!cisun2000.unil.ch!pcisrec-c302.unil.ch Jens Alfken wrote in article <5l4pjd$psl@fu-berlin.de>... > Hi, > > just lost my access to a server running the GCG packgage :( > > Is there any Website that would allow a protein sequence search using > degenerate sequences like the findpattern program in GCG does ? > Try http://www.ch.embnet.org/software/PATFND_mailform.html You can submit patterns in Prosite or Unix regexp formats, and search a weekly updated non-redundant protein sequence database. Good luck! Victor Jongeneel From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!cs.utexas.edu!news.maxwell.syr.edu!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-feed1.tiac.net!uunet!in1.uu.net!128.138.243.15!csnews!boulder!structure.colorado.edu!user From: Peersen@Colorado.edu (Olve Peersen) Newsgroups: bionet.software Subject: Re: backup system for Mac Date: Tue, 13 May 1997 14:50:23 -0600 Organization: University of Colorado Lines: 17 Message-ID: References: <33771B4B.6EAC@iastate.edu> <5l942i$3dg@news.ox.ac.uk> NNTP-Posting-Host: structure.colorado.edu > Retrospect / Retrospect Remote. Use one machine as a central server and > back up each remote HD automatically. Works really great if you have I agree. Note that you can also do this using only Restrospect (i.e. without Retrospect Remote) by mounting the remote disks on the machine running the backup. Howerver, opened files (i.e. System, fonts, etc.) will not be backed up as they are locked out. Will work quite well for a user disk though, and Retrospect even remembers passwords needed to mount volumes and will mount them automatically. Olve Peersen ----------------------------------------------------------------- Olve Peersen Peersen@Colorado.edu University of Colorado - Boulder Dept. of Chemistry & Biochemistry From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!chippy.visi.com!news-out.visi.com!newsfeed.direct.ca!supernews.com!news From: Ray Smith Newsgroups: bionet.software Subject: Re: Gel analysis software Date: Tue, 13 May 1997 13:58:42 -0400 Organization: Media Cybernetics, L.P. Lines: 22 Message-ID: <3378ABD2.5188@mediacy.com> References: <336A35BA.142F@biobase.dk> <5kkjk3$mq7@hydraulix.bangor.ac.uk> Reply-To: ray@mediacy.com NNTP-Posting-Host: dialup23.atlantech.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) > : Hello netters, > > : Can anyone recommend a public domain/low cost software for analysis > : of digitalized gel images? The commercial versions seem outrageously > : expensive (2,000 $ and up)! > I am admittedly biased, but when you factor in the costs to engineer, develop, support, and market a specialized product such as gel image analysis software, $2000 sounds about right! And there's no doubt that gel analysis software saves a lot of time (money) in the lab and increases repeatability as well. (Media Cybernetics makes Gel-Pro Analyzer for Mac and for Windows which sells for $1999 in the States :) Ray ~~~~~~~~~~~~~~~~~~~~ Ray Smith Media Cybernetics, L.P. ray@mediacy.com http://www.mediacy.com From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!gondor!sol.ctr.columbia.edu!spool.mu.edu!uwm.edu!news-peer.gsl.net!cpk-news-hub1.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-feed1.tiac.net!uunet!in3.uu.net!205.152.0.23!news.atl.bellsouth.net!news.cha.bellsouth.net!news.msy.bellsouth.net!newsrelay.iastate.edu!news.iastate.edu!not-for-mail From: Yiji Xia Newsgroups: bionet.software Subject: backup system for Mac Date: Mon, 12 May 1997 14:29:49 +0100 Organization: Iowa State University, Ames, Iowa, USA Lines: 12 Message-ID: <33771B4B.6EAC@iastate.edu> NNTP-Posting-Host: mac20185.agron.iastate.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (Macintosh; I; PPC) Hi, We have several Macintosh conneted thru network in the lab. We assign lab personnel to specific machines and they store their data on their "home" hard drive. We now want to set up a backup system to backup all these HD periodically. I would appreciate any information/suggestion/complaint regarding this matter. Thanks. An-Ping Hsia Ph.D./Schnable Lab hsia@iastate.edu From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!news-peer.gsl.net!howland.erols.net!rill.news.pipex.net!pipex!server1.netnews.ja.net!server5.netnews.ja.net!server6.netnews.ja.net!str-ccsun!strath-cs!news.qub.ac.uk!not-for-mail From: Andrew Wallace Newsgroups: bionet.software Subject: Re: Molecular aggregation Date: Tue, 13 May 1997 15:59:39 +0100 Organization: Queens University Belfast Lines: 34 Message-ID: <337881CB.6572@see.signature.qub.ac.uk> References: Reply-To: a.wallace@see.signature.qub.ac.uk NNTP-Posting-Host: awall.bc.qub.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 3.0 (Macintosh; I; PPC) To: laborato@INFOSEL.NET.MX laborato@INFOSEL.NET.MX wrote: > > Hi neters > > Does anyone have info. how measurement molecular aggregation? > > Thank in advance. > > Eduardo Pérez Campos > E-mail: laborato@infosel.net.mx > laborato@oaxaca.infosel.com.mx > Assuming you mean experimental measurement rather than some kind of computerised prediction procedure, there are several possibilities: Spectroscopy (UV, IR and CD) Light-scattering Chromatography Dye-binding NMR X-ray and neutron diffraction to name a few approaches used for biological macromolecules. It might help if you were more specific about what sort of molecules you want to work with. Andrew -- - note antispam feature in header. My real address is: ================================================================== Andrew Wallace,Ph.D., Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!news.maxwell.syr.edu!news-xfer.cybernet.dk!newsfeed.de.ibm.net!ibm.net!02-newsfeed.univie.ac.at!m2.atnet.at!usenet From: DAMIJAN POSEDEL Newsgroups: bionet.software Subject: test Date: Tue, 13 May 1997 13:36:25 +0200 Organization: ACC Albertina Computer-Beratung Lines: 1 Message-ID: <33785239.446@acc.atnet.at> Reply-To: demian@magnet.at NNTP-Posting-Host: 194.152.160.246 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 [de] (Win95; I) test test From owner-software@net.bio.net Mon May 12 23:00:00 1997 From: rgrant@see.sig.for.address (Richard P Grant) Newsgroups: bionet.software Subject: Re: backup system for Mac Date: 13 May 1997 07:09:06 GMT Organization: Oxford University Lines: 27 Message-ID: <5l942i$3dg@news.ox.ac.uk> References: <33771B4B.6EAC@iastate.edu> NNTP-Posting-Host: worf.molbiol.ox.ac.uk X-Newsreader: TIN [version 1.2 PL2] Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.Hawaii.Edu!news.lava.net!news.flex.com!www.nntp.primenet.com!nntp.primenet.com!newsfeed.nacamar.de!europa.clark.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!rill.news.pipex.net!pipex!server1.netnews.ja.net!warwick!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!news.ox.ac.uk!worf.molbiol.ox.ac.uk!rgrant Retrospect / Retrospect Remote. Use one machine as a central server and back up each remote HD automatically. Works really great if you have machines that can auto-power up and down. We back up to a 2 Gig Dat drive but other options are, I believe, available. Can be completely automated - all you have to do is change the tapes! I'll dig out the contact details if you like. Yiji Xia (yxia@iastate.edu) wrote: } Hi, } We have several Macintosh conneted thru network in the lab. We assign } lab personnel to specific machines and they store their data on their } "home" hard drive. We now want to set up a backup system to backup all } these HD periodically. I would appreciate any } information/suggestion/complaint regarding this matter. Thanks. } An-Ping Hsia } Ph.D./Schnable Lab } hsia@iastate.edu -- Richard P. Grant MA DPhil University of Oxford Nuffield Department Obstetrics and Gynaecology FFPGP rgrant@molbiol.ox.ac.uk http://www.molbiol.ox.ac.uk/~rgrant ----------------------# Are we having fun yet? #---------------------- From owner-software@net.bio.net Mon May 12 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.gsl.net!news-paris.gsl.net!news.gsl.net!rain.fr!global-one.pt!green.cpsi.pt!not-for-mail From: Jumpin_Jack@Hotmail.com (JMartins) Newsgroups: bionet.software Subject: Hardware and Software developers Date: Tue, 13 May 1997 16:36:48 GMT Organization: http://www.cpsi.pt Lines: 27 Message-ID: <33788bb5.1780821@news.cpsi.pt> NNTP-Posting-Host: ppp15.dial.cpsi.pt X-Newsreader: Forte Free Agent 1.1/32.230 - Are you a software developer ? - Are you a hardware developer ? - Your products have a good quality ? - Do you have a reseller in Portugal ? Does anyone represent you in this market ? - Does your software and manuals need to be translated to portuguese ? I'm willing to start a business representing several software and hardware developers (foreign and local) that ain't represented in portuguese market. Im interested in every material for PC. Software for Dos, Win31, Win95 and WinNT. Send me a list of products, prices, payment conditions and european dealers you may have. e-mail : Jumpin_Jack@Hotmail.com Best regards From owner-software@net.bio.net Mon May 12 23:00:00 1997 From: "vandepeer" Subject: Browser type software Newsgroups: bionet.software Organization: Message-ID: <01bc5fa6$36353dc0$ba4d18cb@vandepeer> X-Newsreader: Microsoft Internet News 4.70.1161 NNTP-Posting-Host: dialin078.picknowl.com.au Date: 13 May 97 13:34:40 GMT Lines: 8 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.mel.connect.com.au!news.ade.connect.com.au!duster.adelaide.on.net!dialin078.picknowl.com.au Would anyone know of a sotware package that would allow me to contact a second person's browser, which would then act in a similar manner as my internet supplier. We wish to interact without actually entering the internet, so I suppose we are trying to create a mini-net. Thanks a lot. Winton. My address is: vandepeer@picknowl.com.au From owner-software@net.bio.net Tue May 13 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!ais.net!ameritech.net!uunet!in3.uu.net!152.163.170.17!newstf01.news.aol.com!audrey02.news.aol.com!not-for-mail From: haroldb786@aol.com (HaroldB786) Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: 14 May 1997 15:48:06 GMT Lines: 8 Message-ID: <19970514194800.PAA28290@ladder02.news.aol.com> NNTP-Posting-Host: ladder02.news.aol.com X-Admin: news@aol.com Organization: AOL http://www.aol.com References: <33765a84.10401964@news.demon.co.uk> If you would download ClustalW from somewhere in ebi.ac.uk and GeneDoc from http://www.cris.com/~ketchup/genedoc.shtml, you should be in business. You might also need BBSeq (contact bbabb@medmicro.cuct.ac.za). ClustalW is a DOS program but the others are windows..... I have been using all of them for over 1.5 years---very good programs. most of the others I have are dos-types. hope this helps From owner-software@net.bio.net Tue May 13 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!cpk-news-hub1.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-feed1.tiac.net!uunet!in1.uu.net!206.96.250.4!news1.icx.net!not-for-mail From: "David B. Hedrick" Newsgroups: bionet.software Subject: Re: VALUBLE INFORMATION! <- Ha, ha, ha! Date: Wed, 14 May 1997 00:14:12 -0400 Organization: Hedrick Services Lines: 25 Message-ID: <33793C14.1812@icx.net> References: Reply-To: davidbhedrick@icx.net NNTP-Posting-Host: pm2o.icx.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01C-KIT (Win95; U) The dingo can't make money off his rip-off schemes, so he wants to sell them to us! I love it. > I have a complete set of 50 HOW TO -INFORMATION REPORTS. > My Reports include the following : > > (1) HOW TO WRITE ORDER PULLING ADS. > (2) MAKING MILLIONS! > (3) HOW TO START YOUR OWN HOMEBASED BUSINESS! > Plus many many more. > > How much would you expect to pay for these reports?... $50....$40. ~DBH Technical writing, literature search, and data analysis at the interface of chemistry and biology. davidbhedrick@icx.com David B. Hedrick P.O. Box 16082 Knoxville, TN 37996 From owner-software@net.bio.net Tue May 13 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!news.maxwell.syr.edu!news-was.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!news-zh.switch.ch!elna.ethz.ch!not-for-mail From: Daniel Bisig Newsgroups: bionet.software Subject: Software to calculate immobiline mixtures Date: Wed, 14 May 1997 07:43:10 -0700 Organization: ETHZ Lines: 19 Message-ID: <3379CF7E.41C6@wawona.vmsmail.ethz.ch> NNTP-Posting-Host: bccinema.ethz.ch Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01 (X11; I; IRIX 5.3 IP22) I' have to pour some isoelectric focusing gels with immobilized pH gradient at some unorthodox pH ranges which are not tabulated in the literature I have searched so far. Therefore, I am looking for some software product (preferable freeware) that can do the appropriate calculations to determine the immobline mixtures. Is there such a program for mac or unix systems? Thanks in advance -- Daniel A. Bisig _______________________________________ _/_/_/_/_/_/_/ _/ Swiss mailto:bcbisig@wawona.vmsmail.ethz.ch _/ _/ _/ _/ Federal phone: 0041-1-632-3020 _/_/_/ _/ _/_/_/ Institute phone (priv): 0041-1-481-6028 _/ _/ _/ _/ of Fax: 0041-1-632-1121 _/_/_/ _/ _/ _/ Technology __________________________________________________________________ From owner-software@net.bio.net Wed May 14 23:00:00 1997 Path: biosci!PUBLIC.EAST.CN.NET!yijian From: yijian@PUBLIC.EAST.CN.NET (yijian) Newsgroups: bionet.software Subject: I need instruction for study bio-software Date: 14 May 1997 20:21:34 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 8 Sender: daemon@net.bio.net Distribution: world Message-ID: <33798DEE.4E3E@public.east.cn.net> Reply-To: yijian@public.east.cn.net NNTP-Posting-Host: net.bio.net I am a new man for bio-software,I need specialist to instruct me,what basic software I should study. Thanks very much!!! Edward From owner-software@net.bio.net Wed May 14 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!howland.erols.net!news.maxwell.syr.edu!newsfeed.nacamar.de!fu-berlin.de!news-ber1.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!in2p3.fr!univ-lyon1.fr!cri.ens-lyon.fr!news From: "deleage@ibcp.fr" Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: Thu, 15 May 1997 13:38:10 +0200 Organization: Institut de Biologie et Chimie des Proteines. CNRS-Lyon Lines: 28 Message-ID: <337AF5A2.167E@ibcp.fr> References: <33765a84.10401964@news.demon.co.uk> NNTP-Posting-Host: bugatti.ibcp.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; AIX 1) Nicholas Owen wrote: > > We use GCG at work but to save me logging in from home I would like to > > analyse my sequences on a Windows machine. > > Does anyone know of a programme(s) that can align multiple sequences, > translate, map, reverse etc sequences under Windows? > > Any information much appreciated > > Nicholas Owen The ANTHEPROT package I developed fro Windows is able to edit multiple alignment. It makes many things more... Hope this helps, Gilbert -- ===================================================================== # Institut de Biologie et Chimie des Proteines. UPR 412-CNRS # # ***** ***** **** ***** Dr Gilbert Deleage # # # # # # # # # 7, passage du Vercors # # # ***** # # # 69367 Lyon Cedex 07,FRANCE # # # # # # #**** Tel: (33) 04-72-72-26-47 # # # # # # # # Fax: (33) 04-72-72-26-01 # # ***** ****** **** # deleage@ibcp.fr # # http://www.ibcp.fr # ===================================================================== From owner-software@net.bio.net Wed May 14 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!newsxfer3.itd.umich.edu!rill.news.pipex.net!pipex!oleane!jussieu.fr!univ-lille1.fr!u-strasbg.fr!news From: pingouin@crystal.u-strasbg.fr (Francois JEANMOUGIN) Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: 15 May 1997 07:19:23 GMT Organization: IGBMC Lines: 35 Message-ID: <5leddr$ncr@news.u-strasbg.fr> References: <33765a84.10401964@news.demon.co.uk> <19970514194800.PAA28290@ladder02.news.aol.com> Reply-To: jeanmougin@igbmc.u-strasbg.fr NNTP-Posting-Host: crystal.u-strasbg.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii X-Newsreader: knews 0.9.8 In article <19970514194800.PAA28290@ladder02.news.aol.com>, haroldb786@aol.com (HaroldB786) writes: > If you would download ClustalW from somewhere in ebi.ac.uk and GeneDoc > from http://www.cris.com/~ketchup/genedoc.shtml, you should be in > business. You might also need BBSeq (contact bbabb@medmicro.cuct.ac.za). > ClustalW is a DOS program but the others are windows..... I have been > using all of them for over 1.5 years---very good programs. most of the > others I have are dos-types. ClustalX, the GUI for ClustalW run under Windows 32 bit system (and all other systems supported by the vibrant libraries). You can download it from: ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX/ We didn't had time to check with the authors of seqpup and genedoc if everything goes well, but because the output formats are standard (clustal, MSF, GDE at least), I think all of this work well. Also ClustalX provide some analysis tools, the publication related to this is under submission. Please feel free to e-mail me any comments about ClustalX on PC, and its interaction with Genedoc or SeqPup. I will try to make a little web page on how to make ClustalX work with Seqlab, and this could be interesting to had some words about Genedoc and Seqpup too. Thanks for any reply, Francois. -- Francois Jeanmougin Service de bioinformatique / bioinformatics service IGBMC BP 163 67404 Illkirch France tel :(France) 03 88 65 32 71 / (international) (+33) 3 88 65 32 71 e-mail : jeanmougin@igbmc.u-strasbg.fr "C'est pas parcequ'on monte au banc, qu'il faut descendre a jeun." (Thiefaine) From owner-software@net.bio.net Wed May 14 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!howland.erols.net!news2.digex.net!news5.digex.net!haven.umd.edu!dailyplanet.wam.umd.edu!usenet From: Cynthia Zujko-Miller Newsgroups: bionet.software Subject: seeking DADA matrix Date: Thu, 15 May 1997 14:29:41 -0400 Organization: University of Maryland, College Park, MD Lines: 17 Message-ID: <337B5615.7B18@wam.umd.edu> NNTP-Posting-Host: annex13-38.dial.umd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win95; I) Are there any systematists/cladists out there who use the cladistic program DADA to create data matrices? If so, I would greatly appreciate recieving a text file of a data matrix created in DADA. I'm currently building a program which creates an interactive key based on data matrices used in cladistic analysis. So far, I hava samples of a nexus file (used with MacClade), and an xread file which was created in Tree Gardner. I understand that DADA creates a matrix in xread format, but that the character and state data (the text/names for the characters and states which are ignored by the tree-finder) are in a different format in DADA files. I would certainly acknowledge the contribution in any documentation resulting from this project. Thanks in advance - Cynthia cynthiae@wam.umd.edu From owner-software@net.bio.net Wed May 14 23:00:00 1997 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeeds.sol.net!feed1.news.erols.com!newsfeed.nacamar.de!fu-berlin.de!news-ber1.dfn.de!news-fra1.dfn.de!news-ge.switch.ch!in2p3.fr!univ-lyon1.fr!cri.ens-lyon.fr!news From: "deleage@ibcp.fr" Newsgroups: bionet.software Subject: Re: findpatterns on the WEB ? Date: Thu, 15 May 1997 13:32:23 +0200 Organization: Institut de Biologie et Chimie des Proteines. CNRS-Lyon Lines: 27 Message-ID: <337AF447.41C6@ibcp.fr> References: <5l4pjd$psl@fu-berlin.de> NNTP-Posting-Host: bugatti.ibcp.fr Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0 (X11; I; AIX 1) Jens Alfken wrote: > > Hi, > > just lost my access to a server running the GCG packgage :( > > Is there any Website that would allow a protein sequence search using > degenerate sequences like the findpattern program in GCG does ? > > Jens Alfken > > alfken@zedat.fu-berlin.de We have developed such a search, the URL is : http://www.ibcp.fr/predict.html Hope this helps, Gilbert -- ===================================================================== # Institut de Biologie et Chimie des Proteines. UPR 412-CNRS # # ***** ***** **** ***** Dr Gilbert Deleage # # # # # # # # # 7, passage du Vercors # # # ***** # # # 69367 Lyon Cedex 07,FRANCE # # # # # # #**** Tel: (33) 04-72-72-26-47 # # # # # # # # Fax: (33) 04-72-72-26-01 # # ***** ****** **** # deleage@ibcp.fr # # http://www.ibcp.fr # ===================================================================== From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!webtv.net!uunet!in3.uu.net!192.239.17.140!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.internetmci.com!stdio!uninett.no!news.uni-c.dk!news.uni-c.dk!not-for-mail From: Jan Hansen Newsgroups: bionet.software Subject: Prediction of O-glycosylation sites Date: Fri, 16 May 1997 14:09:50 +0200 Organization: News Server at UNI-C, Danish Computing Centre for Research and Education. Lines: 49 Message-ID: <337C4E8E.167E@cbs.dtu.dk> NNTP-Posting-Host: dna.cbs.dtu.dk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (X11; I; IRIX 5.2 IP22) -- Prediction of Mucin type O-glycosylation sites, NetOglyc version 2.0: NetOglyc is a neural network algorithm recognizing Mucin type O-glycosylation sites in mammalian proteins. The method have been updated with increased performance. The method is available at: http://www.cbs.dtu.dk/services/NetOGlyc/ both as a mail and www server. The in vivo glycosylations sites used for making the method is listed in O-GLYCBASE available at: http://www.cbs.dtu.dk/databases/OGLYCBASE/ Abstract: The specificities of the UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase family which links the carbohydrate GalNAc to the side chain of certain serine and threonine residues in mucin type glycoproteins are presently unknown. The specificity seems to be modulated by sequence context, secondary structure and surface accessibility. The sequence context of glycosylated threonines was found to differ from that of serine, and the sites were found to cluster. Non-clustered sites had a sequence context different from that of clustered sites. Charged residues were disfavoured at position -1 and +3. A jury of artificial neural networks was trained to recognize the sequence context and surface accessibility of 299 known and verified mucin type O-glycosylation sites extracted from O-GLYCBASE. The cross-validated NetOglyc network system correctly found 83 % of the glycosylated and 90 % of the non-glycosylated serine and threonine residues in independent test sets, thus proving more accurate than matrix statistics and vector projection methods. Jan Hansen Center for Biological Sequence Analysis Department of Physical Chemistry The Technical University of Denmark Building 206 DK-2800 Lyngby Denmark Phone: +45 4525 2485 Fax: +45 4593 4808 E-mail: janhan@cbs.dtu.dk WWW: http://www.cbs.dtu.dk/janhan/homepage.html From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!gondor!newshub.sdsu.edu!newshub.csu.net!usc!howland.erols.net!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news-xfer.netaxs.com!news.dn.net!news.webt.com!ftn.net!passport.ca!news From: Christopher Heer Newsgroups: bionet.agroforestry,bionet.plants,bionet.software,sci.bio.botany,bionet.biology.tropical Subject: Data Collection Software Date: Fri, 16 May 1997 09:47:51 -0400 Organization: Fieldworker Lines: 14 Message-ID: <337C6586.88F@fieldworker.com> Reply-To: webmaster@fieldworker.com NNTP-Posting-Host: pm1-22.passport.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) Xref: biosci bionet.agroforestry:5452 bionet.plants:15492 bionet.software:18620 sci.bio.botany:4660 bionet.biology.tropical:2451 FieldWorker is data collection software which runs on a handheld computer. Data is tagged with GPS location where it was collected. Design your own data collection forms and export collected data into any desktop mapping or GIS package. Need more info on this portable affordable solution? FieldWorker's website now features an interactive online demo at http://www.fieldworker.com/ ================================================ Christopher Heer, Webmaster A Full Range of In-Field Data Collection Software! Choose from: FW Lite: US$149... FW 2.3: US$599...Coming soon FW Pro!! On-Line Demos! ..."Show Me!"... at http://www.fieldworker.com -- FieldWorker Products Ltd.-- Tel: +1 416 483 3485 ================================================ From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!daresbury!uninett.no!hermod.uio.no!ifi.uio.no!hunter.premier.net!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!mindspring!cssun.mathcs.emory.edu!news.service.emory.edu!news From: John Altman Newsgroups: bionet.software Subject: Opinions on Gene Construction Kit 2? Date: Fri, 16 May 1997 11:21:51 -0400 Organization: Emory University Lines: 18 Message-ID: <337C7B8E.10CB@microbio.emory.edu> Reply-To: altman@microbio.emory.edu NNTP-Posting-Host: 170.140.60.101 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Macintosh; I; PPC) I need some software to manage various subcloning projects -- it doesn't need to do much in the way of database searching. Does anyone have any opinions on Gene Construction Kit 2? Thanks, John -- ************************************************************************ John Altman altman@microbio.emory.edu Emory University Department of Microbiology and Immunology Office: (404) 727-5981 3119 Rollins Research Center FAX: (404) 727-3659 1510 Clifton Road Atlanta, GA 30322 ************************************************************************ From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!daresbury!uninett.no!stdio!Gamma.RU!srcc!hermes.sovam.com!sovam!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news.sprintlink.net!Sprint!feed1.news.erols.com!news1.best.com!nntp2.ba.best.com!slp.vip.best.com!user From: slp@stevenscreek.com (Steve Patt) Newsgroups: bionet.software Subject: PR: HP Plotter Emulator for the Mac - New Release Date: 16 May 1997 16:44:00 GMT Organization: Stevens Creek Software/The Athlete's Bookstore Lines: 48 Message-ID: NNTP-Posting-Host: slp.vip.best.com PLOTVIEW 4.0 RELEASED STEVENS CREEK SOFTWARE UPDATES ITS HP PLOTTER EMULATOR FOR THE MACINTOSH CUPERTINO, Calif.--May 16, 1997--Stevens Creek Software announced today that it has begun shipping the long-awaited update to its first commercial product, PlotView (tm) for the Macintosh. Since its introduction in 1988, PlotView has been the only Hewlett-Packard plotter emulator on the market, not only translating files of Hewlett-Packard Graphics Language (HP-GL) commands into PICT images, but also accepting HP-GL input direct via the serial port of the Macintosh. Users of PlotView include users of a wide variety of scientific instruments, digital oscilloscopes, and computer software on other platforms which produces HP-GL output. PlotView 4.0 is a 32-bit clean version that runs on all PowerMacs and is compatible with the latest System software. It also features: o Greater flexibility and reliability when connecting to scientific instruments or other computers via the serial port, giving users control over handshaking options and port selection. o Increased control over the HP-GL interpretation, giving users more choices in line thickness and a wider range of font sizes. o Significantly higher resolution printed output than earlier versions. Version 4.0 of PlotView is shipping now. Full information about the software, sample "plots" illustrating a wide range of applications, as well as a complete online HTML manual, can be found at: . A functional trial copy of the software (with limitations on printing and saving) can also be downloaded from the site. Users of older versions of the software can order upgrades at the Web site, or by email (sales@stevenscreek.com), phone (1-800-823-4279) or fax (1-408-725-0424). ############################################ PlotView is a registered trademark of Stevens Creek Software. All other trademarks are property of their respective owners. Electronic screen shots and review copies of PlotView are available upon request. Inquiries regarding distribution of PlotView are welcome; reseller prices are available. For more information contact: Steven Patt President, Stevens Creek Software Phone: (408-725-0424) E-mail: plotview@stevenscreek.com From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!daresbury!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!news From: Peter Rice Newsgroups: bionet.software Subject: Re: EGCG v9? Date: 17 May 1997 00:07:12 +0100 Organization: The Sanger Centre Lines: 16 Sender: pmr@unst Message-ID: References: <5lii9q$q8f$1@oac2.hsc.uth.tmc.edu> NNTP-Posting-Host: unst.sanger.ac.uk X-Newsreader: Gnus v5.3/Emacs 19.34 sa12114@odin.mdacc.tmc.edu (Sys Adm) writes: > I am trying to install EGCG on Digital-UNIX (OSF). We have GCG release 9 > installed on the computer. The only EGCG release I can find is for GCG > version 8.1. Is that version compatible with GCG v9 ? Also does anyone > know if there is standalone "PrettyBox/PrettyPlot" program available > somewhere for download ? EGCG 9 is a little delayed. Probably release date is in a couple of months. Sadly, you will not be able to run EGCG 8.1 with GCG 9.0. Yoo much has changed. -- ---------------------------------------------------------------------- Peter Rice | Informatics Division, The Sanger Centre, E-mail: pmr@sanger.ac.uk | Wellcome Trust Genome Campus, Tel: (44) 1223 494967 | Hinxton, Cambridge, CB10 1SA, England Fax: (44) 1223 494919 | URL: http://www.sanger.ac.uk/Users/pmr/ From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!feeder.chicago.cic.net!news.indiana.edu!not-for-mail From: "Joseph A. Near" Newsgroups: bionet.software Subject: Re: Spy people on the Net Date: Fri, 16 May 1997 11:30:23 -0500 Organization: Indiana University Lines: 12 Message-ID: <337C8B9F.88F@indiana.edu> References: <337b8fc7.1908478@bang-olufsen.dk> NNTP-Posting-Host: wart.medsci.indiana.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) How much for software to prevent spying and block the robot mailer? You're missing half (no, 90%) of the market here, dude. Joe Future-NET wrote: > > I present here my two most recent software which I hope they interest you. > they are progammed by Turbo C++ and run under Windows(3.11 and 95). > here is a short description of these two software. > From owner-software@net.bio.net Thu May 15 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.uth.tmc.edu!not-for-mail From: sa12114@odin.mdacc.tmc.edu (Sys Adm) Newsgroups: bionet.software Subject: EGCG v9? Date: 16 May 1997 21:07:06 GMT Organization: mdacc Lines: 9 Message-ID: <5lii9q$q8f$1@oac2.hsc.uth.tmc.edu> NNTP-Posting-Host: odin.mdacc.tmc.edu Mime-Version: 1.0 Content-Type: text/plain;charset=US-ASCII Content-Transfer-Encoding: 7bit Hi, I am trying to install EGCG on Digital-UNIX (OSF). We have GCG release 9 installed on the computer. The only EGCG release I can find is for GCG version 8.1. Is that version compatible with GCG v9 ? Also does anyone know if there is standalone "PrettyBox/PrettyPlot" program available somewhere for download ? Thanks for your help. From owner-software@net.bio.net Fri May 16 23:00:00 1997 Path: biosci!daresbury!uninett.no!news.uni-c.dk!hunter.premier.net!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!disgorge.news.demon.net!demon!dispatch.news.demon.net!demon!zetnet.co.uk!btnet-feed1!BTInternet!usenet From: bob.mcathey@dartnet.co.uk (Bob Mc Athey) Newsgroups: bionet.software Subject: Free Software Date: Sat, 17 May 1997 00:43:17 GMT Organization: Recall Systems Message-ID: <337cffb5.0@net1.dartnet.co.uk> NNTP-Posting-Host: net1.dartnet.co.uk X-Newsreader: Forte Free Agent 1.0.82 Lines: 160 Recall Systems - Catalogue 1997-'98 =================================== ADVERTISING DISPLAY An eye catching and moving display incorporating your product details. Attracts and informs customers whilst they are "just browsing". CASHFLOW Models cash flows and balances for all types of projects, from complicated systems to simply keeping a check on your current bank account. CHERISHED NUMBERS Used in the trade of personal number plates. Produces data disks for distribution between traders. Automatic selection of cheapest owner when duplicate registrations are distributed. Keeps up to date records of all requirements. CONTRACT WHIST The computer plays four hands against yours (no cheating!) in this skillful and thought-provoking version based on the game of trumps. Keeps players' accounts and plays hard! DIALCODE Displays any telephone number you want to call at the stroke of a key! Uses dynamic filtering to narrow down the list to the one you want. Quick and efficient. Stores all your names, numbers and addresses for easy cross-reference and retrieval. Also - finds telephone area codes by entering place names, finds place names by entering area codes...etc! You'll wonder WHY you ever coped without it! An invaluable tool. DISK MAKER Wipes out any directories or files on your diskette and automatically copies chosen directory of files to diskette from the hard drive. Repeats as often as required. EMBOSS '97 Designed to drive a card embossing machine from data supplied on diskette or entered via keyboard. ESTIMATE Universal program for busy sales people. Simply select the customers' items from category lists you design yourself and see them listed and priced with V.A.T. and totalled up instantly. Records all estimates for later retrieval. No more need for the calculator or pen and paper! Give your customers instant quotes for complicated orders! Sell quicker! INVOCÉ Produces invoices for customers. Records invoices for later retrieval. Produces many reports - eg. best selling lines, customer spend, customer accounts, outstanding debts etc. Doubles as customer database. Reduces stationery costs - prints letterheads (change your details at a keystroke), envelopes, labels, With Compliments slips. Many options. LABEL DESIGNER Design labels to your own specification using any truetype font in any color or size. Uses drag & drop techniques and allows overlapping texts. Prints to adhesive labels supplied on A4 sheets. Any individual label on the A4 sheet can be selected for printing. Stores and retrieves finished designs for later use. Very versatile. LOTTERY Be a winner with our random number generator. Has won numerous tenners already. Checks winning lines for you. Will it be YOU ? LUDO The classic game in rich primary colours. Teaches children that computers can be fun. Plays a wicked strategy that can be addictive. For avid gamers 3 years & upwards. MAINTENANCE LOG Logs maintenance operations when they occur and automatically sets a date for the next occasion in a diary according to your requirements. Produces varied reports that keeps maintenance up to date. PSYCHO ANALYST An exercise in "computer intelligence". Allows you to have a "conversation" with your own personal "analyst". Often intriguing, irritating but amusing! Never answers a straight question. See who can confuse who most! RETAIL Calculates VAT and gross profit from cost price, cost vat and retail price. SLIDE PUZZLE Computer version of the old stocking filler. Sort the tiles into order after the computer has scrambled them. Encourages thinking ahead. Facility to import your own creations from Paintbrush or other .BMP files. STOCKLEVEL Universal program for busy stores people. Design your own categories to mimic your own company's stores. Records current stocklevels, values, bin locations etc. and prints stock-taking lists as required. Calculates total stores value (not for the squeamish). Can help reduce stock overheads. TWENTY QUESTIONS General knowledge program for quiz addicts. Test yourself against some difficult and varied posers. Requires twenty correct answers to win! =================================================================== FREE SOFTWARE - TRY BEFORE YOU BUY Each program runs fully functional for 28 days (free) for evaluation purposes. You only pay if you wish to use after this free period. =================================================================== Advertising Display 13.22 Cashflow 6.04 Cherished Numbers 192.18 Contract Whist 6.14 Note: Prices shown Dialcode 13.64 are per annum. Disk Maker 13.39 Emboss 262.50 Estimate 130.08 Invoice 56.67 Label Designer 16.79 Lottery 2.10 Ludo 6.29 Maintenance Log 69.20 Psycho Analyst 5.62 Retail 9.19 Slide Puzzle 3.94 Stocklevel 165.29 Twenty Questions 6.64 Smile! 0.00 (free) =================================================================== To obtain any of the above software, simply e-mail your selection to bob.mcathey@dartnet.co.uk and we will e-mail them back to you FREE OF CHARGE. OR To obtain ALL the above software on disk (United Kingdom only), send £10.25 to cover P&P or alternatively £5.25 for any 10 selections on one disk. * * * RECALL Systems, P.O. Box 8, Hythe, Southampton, England SO45 6BP Tel: +44 +01703 844966 * * * From owner-software@net.bio.net Fri May 16 23:00:00 1997 Path: biosci!webtv.net!uunet!in1.uu.net!192.239.17.140!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-pull.sprintlink.net!news.sprintlink.net!Sprint!chi-news.cic.net!newsspool.doit.wisc.edu!news.doit.wisc.edu!ebv.oncology.wisc.edu!aiyar From: aiyar@ebv.oncology.wisc.edu (Ashok Aiyar) Newsgroups: bionet.software Subject: Re: Windows Software for Sequence Analysis? Date: 17 May 1997 15:31:57 GMT Organization: Sugden Lab, McArdle Laboratory for Cancer Research, UW-Madison Lines: 22 Message-ID: References: <33765a84.10401964@news.demon.co.uk> <19970514194800.PAA28290@ladder02.news.aol.com> Reply-To: aiyar@ebv.oncology.wisc.edu NNTP-Posting-Host: ebv.oncology.wisc.edu X-Newsreader: slrn (0.9.3.2 UNIX) On 14 May 1997 15:48:06 GMT, HaroldB786 (haroldb786@aol.com) wrote: >If you would download ClustalW from somewhere in ebi.ac.uk The latest version of ClustalW is available from: ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX In this directory you will find Mac (68K & PPC), Win32, Linux, IRIX, OSF/1, and SunOS binaries along with source code. This newest version of CLUSTAL will allow you to edit alignments using a GUI based on the NCBI Vibrant toolkit. Another excellent multiple alignment program is DIALIGN. Unix binaries (for a number of different Unices) are available from: ftp://ariane.gsf.de/pub/unix/dialign Later, Ashok -- Ashok Aiyar, Ph.D. McArdle Laboratory for Cancer Research aiyar@ebv.oncology.wisc.edu From owner-software@net.bio.net Fri May 16 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!gondor!sol.ctr.columbia.edu!news.msfc.nasa.gov!europa.clark.net!newsfeed.internetmci.com!rill.news.pipex.net!pipex!oleane!calvacom!not-for-mail From: "renan jegouzo" Newsgroups: bionet.software Subject: realtime video based on sound analysis Date: Sat, 17 May 1997 09:01:14 +0200 Organization: CalvaCom Data Networks International Communications Lines: 21 Message-ID: <5ljl5p$oj9$3@midgard.calvacom.fr> NNTP-Posting-Host: kip1301-03.calvacom.fr X-Newsreader: Microsoft Outlook Express 4.71.0544.0 X-MimeOLE: Produced By Microsoft MimeOLE Engine V4.71.0544.0 aestesis, is a new shareware, that makes realtime video based on sound analysis, (included: a fli player with sound synchronization) purheaps, it could be interesting because it's makes a rich video representation of sound. http://www.mygale.org/02/renan/ http://www.chez.com/koala/ ISIS - realtime technologie - renan@calva.net From owner-software@net.bio.net Fri May 16 23:00:00 1997