This multiple sequence alignment program is more sophisticated and well regarded than those in most DNA/Protein toolboxes such as DNAStar, GCG, etc. However, it runs in the command line mode on linux systems. It can however handle very large/long alignments and more extensive searches for the best possible alignment.

Category

Multiple Sequence Alignment

Where? How?

T-Coffee is maintained on the emu linux server. It can be run by typing "t_coffee" from any directory.

Last installation and version

The latest installed version is v 2.66 installed on May 27, 2005.

Prior installations available

Documentation

programs web site

License

GPL (GNU public license)

Local expertise

IT: Martin Fleming

NOTE WELL

The program often outputs (depending on settings) an intermediate phylogeny used in making progressively better alignments - not the final phylogeny as a result of the alignment.

Technical Data

• tested on:
• emu path: /usr/local/share/t_coffee_2.66/
• on $PATH? yes​