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

[ Quellcode: 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.

Markierungen: Feld: Biologie, Bioinformatik, Implementiert in: implemented-in::c, interface::commandline, Rolle: Programm, Zweck: Hilfswerkzeug, Zweck: use::analysing, use::comparing, Unterstützt Formate: Benötige eine zusätzliche Markierung, works-with-format::plaintext, works-with::TODO

Andere Pakete mit Bezug zu t-coffee

• dep: libc6 (>= 2.29)

  GNU-C-Bibliothek: Laufzeitbibliotheken
  auch ein virtuelles Paket, bereitgestellt durch libc6-udeb

• dep: libgcc-s1 (>= 3.0)

  GCC Support-Bibliothek

• dep: libstdc++6 (>= 4.1.1)

  GNU-Implementierung der Standard-C++-Bibliothek (Version 3)

• rec: amap-align

  Protein multiple alignment by sequence annealing

• rec: clustalo

  General-purpose multiple sequence alignment program for proteins

• rec: clustalw

  Globale multiple Alignments von Nukleotid- oder Peptidsequenzen

• rec: dialign-tx

  Segmentbasiertes multiples Sequenzalignment

• rec: fsa

  Fast Statistical Alignment of protein, RNA or DNA sequences

• rec: kalign

  Globales und fortschreitendes multiples Sequenzalignment

• rec: libsoap-lite-perl

  Perl-Implementierung von SOAP für Clients und Server

• rec: libxml-simple-perl

  Perl-Modul für das Lesen und Schreiben von XML

• rec: mafft

  Programm für multiples Alignment von Aminosäure- oder Nukleotidsequenzen

• rec: muscle

  Programm zur Ausrichtung mehrerer Proteinsequenzen

• rec: mustang

  Struktur-Alignment mehrerer Proteine

• 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

  Mulitple Alignments von Proteinsequenzen

• rec: tm-align

  structural alignment of proteins

• sug: boxshade

  Pretty-printing von multiplen Sequenzalignments

• sug: seaview

  Multiplatform interface for sequence alignment and phylogeny

• sug: t-coffee-examples

  annotated examples for the use of T-Coffee

t-coffee herunterladen

Download für alle verfügbaren Architekturen

Architektur	Paketgröße	Größe (installiert)	Dateien
mips64el	950,4 kB	3.335,0 kB	[Liste der Dateien]