Export a BELGraph to SCAIView format

pybel / pybel-tools

A PyBEL extension for analyzing BEL graphs

http://pybel-tools.readthedocs.io/

MIT License

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Export a BELGraph to SCAIView format #119

Open cthoyt opened 6 years ago

cthoyt commented 6 years ago

If we'd like to make SCAIView search for all of the elements in a given subgraph, we need to have a system that can generate the correct file format. One option is to directly write this in PyBEL, or we can have an importer somewhere in the microservices to take the resulting JSON

This can be re-run over time from the NeuroMMSig database to make sure it's generally up-to-date

RE: @MarcZimmermann @ddomingof

MarcZimmermann commented 6 years ago

SCAIView needs a list of valid identifiers as provided by the OLS for all the concepts, eg. OMIT:0001963 for Alzheimers disease
how should these concepts be searched? AND, OR, ...?
what should be the result? a list of articles?
please provide a description of the API as SWAGGER file

cthoyt commented 6 years ago

I was more interested to know what the file format looks like that gets loaded into SCAIView. Are they automatically generated from OBO files, or is it a format for which I could also write a PyBEL serializer (assuming proper semantic normalization)?