FTP'able sequencing software

frist at ccu.umanitoba.ca frist at ccu.umanitoba.ca
Wed Mar 24 17:23:14 EST 1993


In article <9303241416.AA06607 at net.bio.net> 047NAIL at WITSVMA.WITS.AC.ZA writes:
>A member of my medical has apporoached me to find out what sequencing
>software (akin to the (commercial ?) packages DNA*, PCGENE, DNASYS) are
>available over the net. We would appreciate any replies, pointers etc
>etc.
>
>Thanks
>Paul Nailand
>University of the Witwatersrand
>Internet: 047nail at witsvma.wits.ac.za

===========================================================
                      F    S    A    P
===========================================================
The Fristensky Sequence Analysis Package (formerly Cornell
Sequence Analysis Package) has proven to be a
versatile, reliable, and highly portable suite of programs for
sequence analysis. At the heart of the package is NUMSEQ, a
sequence manipulation program that provides a large number of
options for presentation of sequence data, as well as
facilitating simulation of operations such as translation,
subcloning and ligation. Restriction search programs predict
fragments and ends from single or multiple, complete or parital
digests, and display linear or circular maps. Rapid matrix
similarity searches perform quantititive comparisons of nucleic
acid and protein sequences. Programs for base/amino acid
composition and ORF analysis are also provided. Programs are
compatible with IUPAC-IUB ambiguity conventions, and can read a
wide variety of sequence file formats.

FTP: psgendb/fsap.tar.Z   at ccu.umanitoba.ca
                               (130.179.16.8)

An MS-DOS version is also available in this directory.
See the README file more information.
===========================================================
                    X    Y    L    E    M
===========================================================
XYLEM is a package of tools designed to exploit the Unix
environment to enable the user to identify, extract and
manipulate data from major databases such as GenBank, EMBL and
PIR. Fundamental to the power of these programs is the ability to
perform operations on groups of sequences, represented by names
or accession numbers which function as virtual database subsets.
The most powerful program is FEATURES, which uses the GETOB parser 
to evaluate GenBank/EMBL/DDBJ Features Table expressions, thereby
extract features (eg. mRNA, sig_peptide, intron) from lists of
entries. Additional programs perform operations such as translation
or randomization of datasets, and formatting of multiply-aligned sequences
for publication. XYLEM is compatible with the Fristensky Sequence
Analysis Package, and the Pearson FASTA programs.

FTP: psgendb/xylem.tar.Z   at ccu.umanitoba.ca
                                (130.179.16.8) 

===============================================================================
Brian Fristensky                | 
Department of Plant Science     |  Which came first: the chicken,
University of Manitoba          |  or the egg?
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frist at ccu.umanitoba.ca          |  The answer can be yours for only $19.95...
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===============================================================================




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