Paket: t-coffee (13.45.0.4846264+really13.41.0.28bdc39+dfsg-1 och andra)

[ Källkod: 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.

Märken: Field: Biologi, Bioinformatics, Implemented in: implemented-in::c, interface::commandline, Role: Program, Scope: Utility, Purpose: use::analysing, use::comparing, Supports Format: Behöver ett märke till, works-with-format::plaintext, works-with::TODO

Andra paket besläktade med t-coffee

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

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

  dep: libc6 (>= 2.36) [sh4]

• dep: libc6.1 (>= 2.33) [alpha]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6.1-udeb

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

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

  GCC stödbibliotek

  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 stödbibliotek

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC stödbibliotek

• dep: libstdc++6 (>= 13.1) [riscv64]

  GNU standardbibliotek v3 för C++

  dep: libstdc++6 (>= 4.1.1) [ej 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

  multipelgruppering av proteinsekvenser

• 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

Hämta t-coffee

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Version	Paketstorlek	Installerad storlek	Filer
alpha (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	997,0 kbyte	3.340,0 kbyte	[filförteckning]
amd64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.007,5 kbyte	2.715,0 kbyte	[filförteckning]
arm64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	894,1 kbyte	2.634,0 kbyte	[filförteckning]
armel	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	846,5 kbyte	2.569,0 kbyte	[filförteckning]
armhf	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	857,3 kbyte	1.929,0 kbyte	[filförteckning]
hppa (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	910,9 kbyte	2.720,0 kbyte	[filförteckning]
i386	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.010,5 kbyte	3.033,0 kbyte	[filförteckning]
ia64 (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.208,2 kbyte	5.405,0 kbyte	[filförteckning]
m68k (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	893,9 kbyte	2.825,0 kbyte	[filförteckning]
mips64el	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	950,6 kbyte	3.380,0 kbyte	[filförteckning]
ppc64 (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.020,1 kbyte	3.466,0 kbyte	[filförteckning]
ppc64el	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.063,4 kbyte	3.402,0 kbyte	[filförteckning]
riscv64	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1+b1	996,7 kbyte	2.295,0 kbyte	[filförteckning]
s390x	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	921,2 kbyte	2.974,0 kbyte	[filförteckning]
sh4 (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.073,0 kbyte	2.570,0 kbyte	[filförteckning]
sparc64 (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	835,5 kbyte	3.150,0 kbyte	[filförteckning]
x32 (inofficiell anpassning)	13.45.0.4846264+really13.41.0.28bdc39+dfsg-1	1.010,6 kbyte	2.710,0 kbyte	[filförteckning]