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, see SequenceAlignment for an overview, but some we still need to work on to render T-Coffee completely happy. Currently missing are:
Pending and difficult/laborious:
- Blast+ (depends on ncbi-tools+, an effort has started in the Debian Med svn repository)
Pending and putatively more easy to pack:
- TMalign (already in new queue)
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.