A package for generating curation sheets for rationally enriching a BEL graph using INDRA and PyBEL.
Project description
A package for generating curation sheets for rationally enriching a BEL graph using INDRA [1] and PyBEL [2].
Installation
bel_enrichment can be installed from directly GitHub with the following command:
$ pip install git+https://github.com/cthoyt/bel-enrichment.gitUsage
Generate a folder full of curation sheets based on the given BEL graph that has been pre-compiled by PyBEL. Use --info-cutoff to specify the minimum information density cutoff. 1.0 means that the node has no edges, .5 means one edge, and so on. Use --belief-cutoff to specify the minimum belief score from INDRA for adding the statement to the sheet. Higher belief means the more chance a statement is already right.
$ bel-enrichment make_sheet zhang2011.bel --directory ~/Desktop/zhang-enrichmentGenerate a ranking for genes based on the information content in a given BEL graph that has been pre-compiled by PyBEL.
$ bel-enrichment ranks zhang2011.belReferences
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