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[ Source: libfreecontact-perl  ]

Package: libfreecontact-perl (0.08-6)

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fast protein contact predictor - binding for Perl

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 Perl binding.

Tags: Software Development: Perl Development, Libraries, Implemented in: C

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Architecture Package Size Installed Size Files
amd64 71.7 kB131.0 kB [list of files]
arm64 70.7 kB126.0 kB [list of files]
armel 70.3 kB126.0 kB [list of files]
armhf 69.5 kB114.0 kB [list of files]
hppa (unofficial port) 72.6 kB139.0 kB [list of files]
hurd-i386 73.1 kB138.0 kB [list of files]
i386 73.0 kB138.0 kB [list of files]
kfreebsd-amd64 71.7 kB131.0 kB [list of files]
kfreebsd-i386 73.1 kB138.0 kB [list of files]
m68k (unofficial port) 71.3 kB130.0 kB [list of files]
mips 68.6 kB135.0 kB [list of files]
mips64el 68.7 kB136.0 kB [list of files]
mipsel 68.8 kB135.0 kB [list of files]
powerpc 71.1 kB146.0 kB [list of files]
powerpcspe (unofficial port) 71.1 kB146.0 kB [list of files]
ppc64 (unofficial port) 71.8 kB147.0 kB [list of files]
ppc64el 71.9 kB147.0 kB [list of files]
s390x 71.4 kB139.0 kB [list of files]
sh4 (unofficial port) 73.8 kB126.0 kB [list of files]
sparc64 (unofficial port) 69.2 kB132.0 kB [list of files]
x32 (unofficial port) 71.9 kB126.0 kB [list of files]