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Export a BELGraph to SCAIView format #119

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cthoyt opened this issue Feb 6, 2018 · 2 comments
Open

Export a BELGraph to SCAIView format #119

cthoyt opened this issue Feb 6, 2018 · 2 comments

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@cthoyt
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cthoyt commented Feb 6, 2018

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
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  • 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
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cthoyt commented Feb 7, 2018

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)?

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