Index of /wrpearson/fasta

Icon  Name                    Last modified      Size  Description
[DIR] Parent Directory                             -   
[   ] COPYRIGHT               08-Apr-2008 08:15  605   
[DIR] CURRENT/                19-Aug-2009 22:09    -   
[DIR] OLD/                    09-Apr-2008 05:35    -   
[DIR] PUBS/                   03-Sep-2009 11:15    -   
[TXT] changes_v34.html        09-Apr-2008 06:22   14K  
[TXT] changes_v35.html        13-Mar-2009 09:26  8.5K  
[DIR] data/                   03-Sep-2009 11:15    -   
[DIR] executables/            23-Aug-2009 16:18    -   
[DIR] fasta2/                 09-Apr-2008 05:55    -   
[   ] fasta3.tar.gz           27-Mar-2009 15:51  616K  GZIP compressed docume>
[DIR] fasta3/                 01-Oct-2009 18:02    -   
[TXT] fasta_versions.html     13-Mar-2009 09:26  3.8K  
[DIR] near_optimal/           20-Jan-2005 14:55    -   
[DIR] other/                  09-Apr-2008 05:23    -   
[   ] readme.COPYRIGHT        08-Apr-2008 08:15  605   
[DIR] www/                    08-Apr-2008 08:14    -   

2-Sept-2009

This directory contains the source code for the FASTA package of
programs, as well as executable binaries for the Windows32 and Mac OSX
platforms.

The current major version of the FASTA programs is fasta35, which can
be found in the fasta3/ directory and the CURRENT/ directory.

The older FASTA2 package, which contains some "classic"
programs for alignment, Kyte-Doolittle transmembrane prediction, and
secondary structure prediction (chofas, garnier), is available in
the fasta2 directory.  The search and alignment programs in
the fasta2 directory are out of date, and should not be used.

The (other/) directory provides other programs,
including the nnnbat program for fitting DNA/RNA
reassociation data (Pearson et al., 1977, Nuc. Acids
Res. 4:1727-1737), and the GNJ program for building evolutionary trees
(Pearson et al., 1999, Mol. Biol. Evol. 16:806-816).

The PUBS/ directory provides datasets and code
from other publications, as does the data/ directory.

The near_optimal/ directory provides the programs described in
Smoot et al., 2004, Bioinformatics 12:953-958.

Bill Pearson
wrp@virginia.edu