Package: python3-freecontact (1.1-6 and others)

[ Source: python-freecontact  ]

fast protein contact predictor - binding for Python3

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 Python3 binding.

Other Packages Related to python3-freecontact

• dep: libboost-python1.74.0 (>= 1.74.0) [mips64el]

  Boost.Python Library

  dep: libboost-python1.74.0 (>= 1.74.0+ds1) [not mips64el]

• dep: libboost-python1.74.0-py311

  virtual package provided by libboost-python1.74.0

• dep: libc6 (>= 2.32)

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

• dep: libfreecontact0v5 (>= 1.0.21)

  fast protein contact predictor library

• dep: libgcc-s1 (>= 3.0) [not armhf]

  GCC support library

  dep: libgcc-s1 (>= 3.5) [armhf]

• dep: libstdc++6 (>= 11)

  GNU Standard C++ Library v3

• dep: python3 (<< 3.12)

  interactive high-level object-oriented language (default python3 version)

  dep: python3 (>= 3.11~)

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amd64	1.1-6+b4	71.4 kB	248.0 kB	[list of files]
arm64	1.1-6+b4	69.0 kB	272.0 kB	[list of files]
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s390x	1.1-6+b4	68.9 kB	248.0 kB	[list of files]