Paket: freecontact (1.0.21-7 ve diğerleri)

[ Kaynak: freecontact  ]

fast protein contact predictor

FreeContact is a protein residue contact predictor optimized for speed. Its input is a multiple sequence alignment. FreeContact can function as an accelerated drop-in for the published contact predictors EVfold-mfDCA of DS. Marks (2011) and PSICOV of D. Jones (2011).

FreeContact is accelerated by a combination of vector instructions, multiple threads, and faster implementation of key parts. Depending on the alignment, 8-fold or higher speedups are possible.

A sufficiently large alignment is required for meaningful results. As a minimum, an alignment with an effective (after-weighting) sequence count bigger than the length of the query sequence should be used. Alignments with tens of thousands of (effective) sequences are considered good input.

jackhmmer(1) from the hmmer package, or hhblits(1) from hhsuite can be used to generate the alignments, for example.

This package contains the command line tool freecontact(1).

freecontact ile İlgili Diğer Paketler

• dep: libboost-program-options1.67.0

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• dep: libc6 (>= 2.14)

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• dep: libfreecontact0v5

  fast protein contact predictor library

• dep: libgcc1 (>= 1:3.0)

  GCC support library

• dep: libgomp1 (>= 4.2.1)

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• dep: libstdc++6 (>= 5.2)

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• dep: libxerces-c3.2

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• dep: perl

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• sug: bash-completion

  programmable completion for the bash shell

• sug: hhsuite

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• sug: hmmer

  profile hidden Markov models for protein sequence analysis

freecontact indir

Tüm mevcut mimariler için indir

Mimari	Sürüm	Paket Boyutu	Kurulu Boyut	Dosyalar
amd64	1.0.21-7+b1	336,9 kB	1.618,0 kB	[dosya listesi]