Package: t-coffee (5.72-1)

[ Source: t-coffee  ]

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

• 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

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arm	518.5 kB	1,107.0 kB	[list of files]
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