python3-freecontact binary package in Ubuntu Focal arm64
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.
Publishing history
Date | Status | Target | Component | Section | Priority | Phased updates | Version | ||
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2020-02-20 07:53:13 UTC | Published | Ubuntu Focal arm64 | release | universe | python | Optional | 1.1-5build2 | ||
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Deleted | Ubuntu Focal arm64 | proposed | universe | python | Optional | 1.1-5build2 | |||
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2020-02-20 07:53:23 UTC | Superseded | Ubuntu Focal arm64 | release | universe | python | Optional | 1.1-5build1 | ||
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2020-02-21 12:10:10 UTC | Deleted | Ubuntu Focal arm64 | proposed | universe | python | Optional | 1.1-5build1 | ||
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2020-02-04 15:43:45 UTC | Superseded | Ubuntu Focal arm64 | release | universe | python | Optional | 1.1-5 | ||
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2020-02-05 18:10:10 UTC | Deleted | Ubuntu Focal arm64 | proposed | universe | python | Optional | 1.1-5 | ||
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2019-10-27 15:58:29 UTC | Superseded | Ubuntu Focal arm64 | release | universe | python | Optional | 1.1-4build1 | ||
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2019-10-28 18:10:09 UTC | Deleted | Ubuntu Focal arm64 | proposed | universe | python | Optional | 1.1-4build1 | ||
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2019-10-24 09:23:31 UTC | Superseded | Ubuntu Focal arm64 | release | universe | python | Optional | 1.1-4 | ||
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