python3-freecontact binary package in Ubuntu Lunar amd64
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.
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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.
Publishing history
Date | Status | Target | Component | Section | Priority | Phased updates | Version | ||
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2023-03-01 11:34:25 UTC | Published | Ubuntu Lunar amd64 | release | universe | python | Optional | 1.1-6build4 | ||
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Deleted | Ubuntu Lunar amd64 | proposed | universe | python | Optional | 1.1-6build4 | |||
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2023-03-01 11:34:33 UTC | Superseded | Ubuntu Lunar amd64 | release | universe | python | Optional | 1.1-6build3 | ||
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2023-03-02 12:10:11 UTC | Deleted | Ubuntu Lunar amd64 | proposed | universe | python | Optional | 1.1-6build3 | ||
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2022-11-07 11:36:04 UTC | Superseded | Ubuntu Lunar amd64 | release | universe | python | Optional | 1.1-6build2 | ||
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