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bridgedb / create-bridgedb-metabolites

Create BridgeDb identity mapping files from HMDB, ChEBI, and Wikidata
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Update ChEBI secondary IDs #nwobridgedb #39

Closed DeniseSl22 closed 2 years ago

DeniseSl22 commented 2 years ago

Now read in from (outdated) file: https://github.com/bridgedb/create-bridgedb-metabolites/blob/master/deprecated_ChEBI.csv Code: https://github.com/bridgedb/create-bridgedb-metabolites/blob/master/createDerby.groovy#L132-L141

Needs to be read in from tsv file (if possible): https://github.com/bridgedb/create-bridgedb-metabolites/blob/master/createDerby.groovy#L263-L301

tabbassidaloii commented 2 years ago

what is the source of deprecated_ChEBI.csv table?

egonw commented 2 years ago

I am not sure. I need to dig that up.

egonw commented 2 years ago

I am not sure. I need to dig that up.

I cannot find where I got this data from / how I created the file.

DeniseSl22 commented 2 years ago

No worries, @tabbassidaloii managed to create a new version https://github.com/tabbassidaloii/create-bridgedb-secondary2primary