lane tracking

Quan Nguyen qan33112 at ussun2n.glaxo.com
Sat Apr 13 16:29:06 EST 1996


this sounds like a good fix but we are currently experiencing the same
problems with our 377 however we are running the genescan collection
program.  will this work with the data that we generate as well?

-quan


In article <4kj6t3$lde at net.bio.net>, Bruce Roe
<BROE at aardvark.ucs.uoknor.edu> wrote:

> Hi all,
>         There recently have become two UNIX-based programs that are
> alternatives to those available by ABI and ABI recently has announced
> a patch for the most recent version of their Sequence Analysis program.
> 
> 1. Getlanes - a UNIX based program to retrack the ABI gel.  This is
>    an excellent little program which we find helpful, but requires
>    that you transfer the "record.run" file (that's the big, 20 meg or
>    so file containing all the raw data on the Mac) to a UNIX workstation.
>    Here's the info:
>         Genome Sequencing Center
>         Washington University
>         School of Medicine
>         St. Louis, MO, USA
> 
>         URL: http://genome.wustl.edu/analysis/analysis.html
>    Follow the link under:
>         Four Color Electrophoretic Gel Image Analysis
>                 Lane-Tracking - Lane Tracking Software
>    to obtain a copy of this program.
> 
> 2. Bass - a UNIX-based replacement for the ABI Sequence Analysis
>           Software.
> 
>   This is the first public release of Bass, the Unix port of Anthony
>   Berno's Macintosh-based Sax program for tracking and processing
>   automated sequencing gels.  Bass and its X-Windows front end, Grace,
>   allows you to track, extract and base call ABI format sequencing gels
>   without using any Macintosh-based sequence analysis software.
> 
>   The current release of Bass can be found at:
> 
>         http://www-genome.wi.mit.edu/ftp/pub/software/Bass/
>         ftp://ftp-genome.wi.mit.edu/pub/software/Bass/
> 
>   The documentation and installation guide can be found in the file
>   doc/BASS.html.
> 
>   In my opinion, this is a great beginning and Lincoln Stein at WI
>   and Anthony Berno at Stanford should be commended for releasing
>   this.  However, it took me several weeks of work to get all the
>   programs (g++, Tcl, TK, and Netatalk) needed for Bass up an running
>   on one of my SparcStations.  If you are not faint of heart and have
>   a deep knowledge of UNIX, then the time spent is worth it.
> 
> 3. Sequencing Analysis v2.1.2  March 1996 Update Patch
> 
> According to ABI readme file on their WWW site:
>         http://www.perkin-elmer.com
> 
>   Sequencing Analysis 2.1.2 is a free update available to customers
>   currently using version 2.1.1 Sequencing Analysis. If you have a
>   previous version of Sequencing Analysis and would like to upgrade to
>   version 2.1.1, please contact your Perkin Elmer representative. 
>   Note the update files are only patches, or partial versions, of
>   Sequencing Analysis. By installing the patch on a computer that
>   currently contains Sequencing Analysis version 2.1.1, that copy of
>   sequencing analysis is updated to version 2.1.2. This file will not
>   install, except on computers that already contain version 2.1.1 of
>   Sequencing Analysis.
> 
> I used fetch to connect to ABI's ftp site:    192.43.251.1
> and just downloaded the patches from the directory:
>         /pub/public/Sequencing/Sequence Analysis 2.1.2/373-377-310
> 
> ABI also has a program called "Edit View" which is in the directory:
>         /pub/public/Sequencing
> I've not yet installed either the patch or Edit View but did want
>   to let everyone know of their availability.
> 
> Cheers to one and all......bruce
> ***************************************************************************
> Bruce A. Roe, Ph.D    Department of Chemistry and Biochemistry
>                       University of Oklahoma, Norman, OK 73019-0370, U.S.A.
> Phone: (405) 325-4912 or 7610; FAX: (405) 325-7762; e-mail: broe at uoknor.edu
> ********************** http://dna1.chem.uoknor.edu/ ***********************

> =>




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