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The "DebianMed/TCoffee" page has been changed by SteffenMoeller: http://wiki.debian.org/DebianMed/TCoffee New page: [[DebPkg:t-coffee|T-Coffee]] is a tool for the preparation of alignments of multiple DNA, RNA or protein sequences. It attempts to learn as much as possible from multiple sources to craft a good alignment and as such depends on many other tools. Most of them are already in Debian, but some we still need to work on. Currently missing are: Pending and difficult/laborious: * Blast+ (depends on ncbi-tools+, an effort has started in the Debian Med svn repository) Pending an easy: * TMalign (already in new queue) * muscle4 (http://www.drive5.com/muscle/muscle4.0_src.tar.gz) * pcma (ftp://iole.swmed.edu/pub/PCMA/pcma.tar.gz) * fsa (http://sourceforge.net/projects/fsa/files/fsa-1.15.3.tar.gz/download/) * prank (http://www.ebi.ac.uk/goldman-srv/prank/src/prank/prank.src.100303.tgz) * sap (http://mathbio.nimr.mrc.ac.uk/download/sap-1.1.1.tar.gz) * probconsrna (http://probcons.stanford.edu/probconsRNA.tar.gz), the compatibility with the [[DebPkg:probcons]] package's probcons-RNA binary is unclear for the moment. The Debian Med group is in direct continuous contact with the upstream developers to help developing the distribution for a best-possible experience for the users of T-Coffee on Debian and Ubuntu. _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
