Paket: freecontact (1.0.21-14)

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Ana Sayfa [rostlab.org]

Benzer paketler:

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

bağımlılıklar

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önerilen

enhances

dep: libboost-program-options1.83.0 (>= 1.83.0)

program options library for C
dep: libc6 (>= 2.38)

GNU C Library: Shared libraries
ayrıca şunun tarafından sağlanan bir sanal paket libc6-udeb
dep: libfreecontact0t64 (>= 1.0.21)

fast protein contact predictor library
dep: libgcc-s1 (>= 3.0)

GCC support library
dep: libstdc 6 (>= 14)

GNU Standard C Library v3
dep: libxerces-c3.2t64

validating XML parser library for C
dep: perl

Larry Wall's Practical Extraction and Report Language

sug: bash-completion

programmable completion for the bash shell
sug: hhsuite

sensitive protein sequence searching based on HMM-HMM alignment
sug: hmmer

profile hidden Markov models for protein sequence analysis

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Mimari	Paket Boyutu	Kurulu Boyut	Dosyalar
s390x	345,7 kB	1.778,0 kB	[dosya listesi]