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Paket: t-coffee (11.00.8cbe486-6)

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.

Andra paket besläktade med t-coffee

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  • dep: libgcc1 (>= 1:3.0)
    GCC support library
  • dep: libstdc++6 (>= 4.1.1)
    GNU Standard C++ Library v3
  • 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
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    Global and progressive multiple sequence alignment
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    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
    multiple alignment of protein sequences
  • rec: tm-align
    structural alignment of proteins
  • sug: boxshade
    Pretty-printing of multiple sequence alignments
  • sug: seaview
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  • sug: t-coffee-examples
    annotated examples for the use of T-Coffee

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Arkitektur Paketstorlek Installerad storlek Filer
amd64 1.880,1 kbyte3687 kbyte [filförteckning]