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Context-Oriented Predictor for variant Effect - Protein-Coding Genes COPE-PCG

Predicts variant effects on protein-coding genes in a context-sensitive approach. COPE-PCG is part of COPE, a framework for predicting the effects of variants through a context-sensitive, gene-centric approach.

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COPE-PCG forum

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COPE-PCG classification

COPE-PCG specifications

Interface:
Web user interface
Programming languages:
Perl
Stability:
Stable
Restrictions to use:
None
Computer skills:
Basic
Maintained:
Yes

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COPE-PCG versioning

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COPE-PCG classification

COPE-PCG specifications

Software type:
Framework/Library
Restrictions to use:
None
Programming languages:
Perl
Computer skills:
Advanced
Requirements:
tabix, bedtools, Perl: Bio::DB::Fasta, Set::IntervalTree, Getopt::Long, Parallel::ForkManager
Interface:
Command line interface
Operating system:
Unix/Linux
License:
Academic Free License version 3.0
Stability:
Stable
Maintained:
Yes

COPE-PCG support

Maintainer

  • Ge Gao <>
  • Ge Gao <>

Credits

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Publications

Institution(s)

State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Center for Bioinformatics, Peking University, Beijing, China

Funding source(s)

Supported by National Key Research and Development Program [2016YFC0901603]; China 863 Program [2015AA020108]; International Collaboration Program for Proteome Biological Big Data and Standard System [2014DFB30030]; State Key Laboratory of Protein and Plant Gene Research; and by the National Program for Support of Top-notch Young Professionals.

Link to literature

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