Initialize repository and test bioprocess, gene, and metapath data extraction #2
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CC @cgreene and @NegarJanani, please take a look and let me know if I may change anything here. |
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Merging this in to continue with new requests surrounding this data. |
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This PR initializes this repo and provides a way to test bioprocess, gene, and metapath data extraction. The work is split into two sections under
src:hetionet_utilswhich is a package intended to help with work in another section,bioprocess_metapath_to_gene_pval_and_dwpc, which is primarily for Jupyter notebook-based analysis work.Within the notebooks I've tried to provide estimates on how large the data extraction tasks may be. As is these appear to be very large and could require significant storage in order to complete without compression or intermediate calculations. Generally I tried to provide documentation where I could but please let me know if I may clarify.
The work builds upon an earlier collaboration with @NegarJanani through this notebook: https://gist.github.com/d33bs/d41b747ecb197d01ec645b525aecbeef , which became the basis for the work found here.