Paketti: t-coffee (13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 ja muut)

[ 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 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

• dep: libc6 (>= 2.34) [ei alpha, arm64, ia64, sh4]

  GNU-C-kirjasto: jaetut kirjastot
  myös näennäispaketti, jonka toteuttaa libc6-udeb

  dep: libc6 (>= 2.36) [sh4]

  dep: libc6 (>= 2.38) [arm64]

• dep: libc6.1 (>= 2.33) [alpha]

  GNU-C-kirjasto: jaetut kirjastot
  myös näennäispaketti, jonka toteuttaa libc6.1-udeb

  dep: libc6.1 (>= 2.36) [ia64]

• dep: libgcc-s1 (>= 3.0) [ei armel, armhf, hppa, ia64, m68k, ppc64, ppc64el, sh4]

  GCC:n apukirjasto

  dep: libgcc-s1 (>= 3.3.4) [sh4]

  dep: libgcc-s1 (>= 3.4.4) [ppc64, ppc64el]

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [ia64]

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC:n apukirjasto

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC:n apukirjasto

• dep: libstdc++6 (>= 13.1) [arm64, riscv64]

  GNU standardi C++ -kirjasto, versio 3

  dep: libstdc++6 (>= 4.1.1) [ei arm64, riscv64]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• 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

Imuroi t-coffee

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Versio	Paketin koko	Koko asennettuna	Tiedostot
alpha (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	997.0 kt	3,340.0 kt	[tiedostoluettelo]
amd64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,007.5 kt	2,715.0 kt	[tiedostoluettelo]
arm64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1+b1	914.7 kt	2,699.0 kt	[tiedostoluettelo]
armel	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	846.5 kt	2,569.0 kt	[tiedostoluettelo]
armhf	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	857.3 kt	1,929.0 kt	[tiedostoluettelo]
hppa (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	910.9 kt	2,720.0 kt	[tiedostoluettelo]
i386	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,010.5 kt	3,033.0 kt	[tiedostoluettelo]
ia64 (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,208.2 kt	5,405.0 kt	[tiedostoluettelo]
m68k (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	893.9 kt	2,825.0 kt	[tiedostoluettelo]
mips64el	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	950.6 kt	3,380.0 kt	[tiedostoluettelo]
ppc64 (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,020.1 kt	3,466.0 kt	[tiedostoluettelo]
ppc64el	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,063.4 kt	3,402.0 kt	[tiedostoluettelo]
riscv64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1+b1	996.7 kt	2,295.0 kt	[tiedostoluettelo]
s390x	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	921.2 kt	2,974.0 kt	[tiedostoluettelo]
sh4 (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,073.0 kt	2,570.0 kt	[tiedostoluettelo]
sparc64 (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	835.5 kt	3,150.0 kt	[tiedostoluettelo]
x32 (epävirallinen siirros)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1,010.6 kt	2,710.0 kt	[tiedostoluettelo]