Package: libfreecontact0v5 (1.0.21-7 and others)

[ Source: freecontact  ]

fast protein contact predictor library

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 shared library implementing freecontact.

Tags: Role: Shared Library

Other Packages Related to libfreecontact0v5

• dep: libblas3

  Basic Linear Algebra Reference implementations, shared library

  or libblas.so.3

  virtual package provided by libatlas3-base, libblas3, libblis2-openmp, libblis2-pthread, libblis2-serial, libopenblas-base

• dep: libc6 (>= 2.15) [not arm64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.17) [arm64]

• dep: libgcc1 (>= 1:3.0) [not armhf]

  GCC support library

  dep: libgcc1 (>= 1:3.5) [armhf]

• dep: libgfortran5 (>= 8)

  Runtime library for GNU Fortran applications

• dep: libgomp1 (>= 4.9)

  GCC OpenMP (GOMP) support library

• dep: liblapack3

  Library of linear algebra routines 3 - shared version

  or liblapack.so.3

  virtual package provided by libatlas3-base, liblapack3, libopenblas-base

• dep: libquadmath0 (>= 4.6) [amd64, i386]

  GCC Quad-Precision Math Library

• dep: libstdc++6 (>= 5.2)

  GNU Standard C++ Library v3

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Architecture	Version	Package Size	Installed Size	Files
amd64	1.0.21-7+b1	73.2 kB	194.0 kB	[list of files]
arm64	1.0.21-7+b1	64.9 kB	165.0 kB	[list of files]
armhf	1.0.21-7+b1	55.3 kB	117.0 kB	[list of files]
i386	1.0.21-7+b1	61.6 kB	165.0 kB	[list of files]