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Source: python-freecontact
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Laszlo Kajan <lkajan@debian.org>,
Andreas Tille <tille@debian.org>,
Alexandre Mestiashvili <mestia@debian.org>
Section: python
Testsuite: autopkgtest-pkg-python
Priority: optional
Build-Depends: debhelper-compat (= 13),
architecture-is-64-bit,
dh-python,
libboost-python-dev,
libfreecontact-dev,
python3-all-dev,
python3-setuptools
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/python-freecontact
Vcs-Git: https://salsa.debian.org/med-team/python-freecontact.git
Homepage: https://rostlab.org/owiki/index.php/FreeContact
Rules-Requires-Root: no
Package: python3-freecontact
Architecture: any
Depends: ${misc:Depends},
${python3:Depends},
${shlibs:Depends}
Description: 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.
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