Paketti: t-coffee (13.41.0.28bdc39+dfsg-4)

Links for t-coffee

Debian-palvelut:

Imuroi lähdekoodipaketti t-coffee:

Ylläpitäjät:

External Resources:

Kotisivu [www.tcoffee.org]

Samankaltaisia paketteja:

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 can also 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.

Tagit: Field: Biology, Bioinformatics, Implemented in: implemented-in::c, interface::commandline, Role: Program, Scope: Utility, Purpose: use::analysing, use::comparing, Supports Format: Need an extra tag, works-with-format::plaintext, works-with::TODO

Muut pakettiin t-coffee liittyvät paketit

depends

recommends

suggests

enhances

dep: libc6 (>= 2.29)

GNU-C-kirjasto: jaetut kirjastot
myös näennäispaketti, jonka toteuttaa libc6-udeb
dep: libgcc-s1 (>= 3.5)

GCC:n apukirjasto
dep: libstdc++6 (>= 4.3.0)

GNU standardi C++ -kirjasto, versio 3

rec: amap-align

Protein multiple alignment by sequence annealing
rec: clustalo

General-purpose multiple sequence alignment program for proteins
rec: clustalw

global multiple nucleotide or peptide sequence alignment
rec: dialign-tx

Segment-based multiple sequence alignment
rec: fsa

Fast Statistical Alignment of protein, RNA or DNA sequences
rec: kalign

Global and progressive multiple sequence alignment
rec: libsoap-lite-perl

Perl implementation of a SOAP client and server
rec: libxml-simple-perl

Perl module for reading and writing XML
rec: mafft

Multiple alignment program for amino acid or nucleotide sequences
rec: muscle

Multiple alignment program of protein sequences
rec: mustang

multiple structural alignment of proteins
rec: ncbi-blast+

next generation suite of BLAST sequence search tools
rec: poa

Partial Order Alignment for multiple sequence alignment
rec: prank

Probabilistic Alignment Kit for DNA, codon and amino-acid sequences
rec: probcons

PROBabilistic CONSistency-based multiple sequence alignment
rec: proda

Proteiinisarjojen moninainen rivitys
rec: tm-align

structural alignment of proteins

sug: boxshade

Pretty-printing of multiple sequence alignments
sug: seaview

Multiplatform interface for sequence alignment and phylogeny
sug: t-coffee-examples

annotated examples for the use of T-Coffee

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