XSAT

A DNA Sequence Analyzation Tool.

xsat is a program that uses aligned nucleotide sequences from a datafile to compute a distance matrix under the Jukes & Cantor (1969) model of nucleotide substitution. This distance matrix can be used to estimate phylogenetic relationships using the UPGMA distance method.

The current development snapshots of xsat are provided as bug fixes and new features are added. Send any comments/suggestions to: xsat@koberco.com

Disclaimer

This software comes with no warranty. Use at your own risk.

Features

Supports input datafiles formats:
- GDE 2
- PHYLIP 4 (Interleaved)
Generate a pairwise-distance matrix between nucleotide sequences using the Jukes & Cantor (1969) distance model.
- Output distance matrix format: DNADIST
Estimate of phylogenetic relationships using the UPGMA distance method.
- Output tree format: Newick 845 (This format can be graphed using TreeView.)
- *** NOTE: This module does not yet produce a nested tree if the solution warrants one.

Releases

xsat version 0.4.0 20021121 (development) is now available:

xsat for Solaris 7/SunOS 5.7 sun4m (gzip)
xsat for Solaris 8/SunOS 5.8 sun4u (gzip)
xsat for Linux 2.4.x i686 (gzip)
xsat for Cygwin_NT-5.0 i686 (gzip)
xsat for MacOS X/Darwin 6.2 Power Macintosh (gzip)

Mailing List

Xsat News and Announcements Mailling List - xsat-announce. Major releases or any other important information about xsat.

Subscription.
- Send a PLAIN TEXT e-mail message to: xsat-announce-request and in the body of the message put this single line only:
  subscribe xsat-announce
- Reply to the confirmation email that is sent to you shortly thereafter.
Archives.
- Online at http://degobah.koberco.com/pipermail/xsat-announce/.

Links and Documentation

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