The Bio Roll contains a suite of Bio-informatics applications, most commonly in use by the bio-informatics community. The list of applications is as follows:
HMMER - From Washington University at St. Louis - http://hmmer.wustl.edu/
NCBI BLAST - From National Center for Biotechnology Information - www.ncbi.nlm.nih.gov/BLAST/
MpiBLAST - From Los Alamos National Laboratory - http://mpiblast.lanl.gov/
biopython - www.biopython.org
ClustalW - From the European BioInformatics Institute - http://www.ebi.ac.uk/clustalw/
MrBayes - From School of Computational Science at the Florida State University - http://mrbayes.csit.fsu.edu/
T_Coffee - From Information Genomique et Structurale at Centre National de la Recherche Scientifique - The T-Coffee Home Page
Emboss - From European Molecular Biology Institute - http://emboss.sourceforge.net/
Phylip - From the Dept. of Biology at the University of Washington - http://evolution.genetics.washington.edu/phylip.html
fasta - From the University of Virginia - http://fasta.bioch.virginia.edu/
Glimmer - From Center for Bioinformatics and Computational Biology at the University of Maryland - http://www.cbcb.umd.edu/software/glimmer/
All the perl utilities mentioned below are from CPAN
perl-bioperl
perl-bioperl-run
perl-bioperl-gui
perl-bioperl-db
All the packages that appear below are dependencies and are already present in the base and OS Rolls. They are installed automatically during system installation.
foundation-python | gd-devel | perl-HTML-Tagset | perl-Scalar-List-Utils |
foundation-python-extras | perl-Data-Stag | perl-IO-String | perl-SOAP-Lite |
ReportLab | perl-Digest-MD5 | perl-IO-stringy | perl-Storable |
flex | perl-File-Temp | perl-libnet | perl-Text-Shellwords |
xorg-x11-devel | perl-GD | perl-libwww-perl | perl-XML-DOM |
readline | perl-GD-SVG | perl-MIME-Base64 | perl-XML-Twig |
readline-devel | perl-Graph | perl-Module-Signature | perl-XML-Writer |
gd | perl-HTML-Parser | perl-PathTools |