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Package: t-coffee (5.72-1)

Multiple Sequence Alignment

T-Coffee is a multiple sequence alignment package. Given a set of sequences (Proteins or DNA), T-Coffee generates a multiple sequence alignment. Version 2.00 and higher can mix sequences and structures.

T-Coffee allows the combination of a collection of multiple/pairwise, global or local alignments into a single model. It also allows to estimate the level of consistency of each position within the new alignment with the rest of the alignments. See the pre-print for more information

T-Coffee has a special called M-Coffee that makes it possible to combine the output of many multiple sequence alignment packages. In its published version, it uses MUSCLE, PROBCONS, POA, DiAlign-TS, MAFFT, Clustal W, PCMA and T-Coffee. A special version has been made for Debian, DM-Coffee, that uses only free software by replacing Clustal W by Kalign. Using the 8 Methods of M-Coffee can sometimes be a bit heavy. You can use a subset of your favorite methods if you prefer.

Tags: Field: Biology, Bioinformatics, Implemented in: C, User Interface: Command Line, Role: Program, Scope: Utility, Purpose: Analysing, Comparing, Supports Format: Plain Text

Other Packages Related to t-coffee

  • depends
  • recommends
  • suggests
  • dep: libc6 (>= 2.7-1) [not alpha, ia64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
  • dep: libc6.1 (>= 2.7-1) [alpha, ia64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6.1-udeb
  • sug: boxshade
    Pretty-printing of multiple sequence alignments
  • sug: clustalw
    global multiple nucleotide or peptide sequence alignment
  • sug: kalign
    Global and progressive multiple sequence alignment
  • sug: mafft
    Multiple alignment program for amino acid or nucleotide sequences
  • sug: muscle
    Multiple alignment program of protein sequences
  • sug: poa
    Partial Order Alignment for multiple sequence alignment
  • sug: probcons
    PROBabilistic CONSistency-based multiple sequence alignment
  • sug: seaview
    Multiple sequence alignment editor
  • sug: t-coffee-doc
    PDF and HTML accompaning documents to T-Coffee
  • sug: t-coffee-examples
    annotated examples for the use of T-Coffee

Download t-coffee

Download for all available architectures
Architecture Package Size Installed Size Files
alpha 679.8 kB1632 kB [list of files]
amd64 575.7 kB1292 kB [list of files]
arm 518.5 kB1107 kB [list of files]
armel 540.4 kB1188 kB [list of files]
hppa 591.1 kB1264 kB [list of files]
i386 519.1 kB1216 kB [list of files]
ia64 886.5 kB2548 kB [list of files]
mips 596.3 kB1600 kB [list of files]
mipsel 599.4 kB1600 kB [list of files]
powerpc 584.4 kB1336 kB [list of files]
s390 562.9 kB1268 kB [list of files]
sparc 514.4 kB1192 kB [list of files]