Calculate ortholog relationships in Reactome#38
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@bgyori this has been cleaned up and now has a more specific scope. What do you think about adding these ~100K orthology mappings between Reactome pathways? In comparison to the 5K we've done manually, this vastly changes the scale of the data here. Do you think this is a problem? Maybe we should have yet another category for large scale calculated mappings that can automatically be trusted (as opposed to predicted, which still need to be checked) so we can keep these separate |
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This PR adds a script for identifying orthologous pathways in Reactome based on lexical matching. All pathway identifiers have the form R-{SPECIES CODE}-{PATHWAY CODE}, so any two species' pathways can be matched by splitting on the dash
-then maching pathways codes.The KEGG and Reactome matching are correct by definition, but do not exist in any primary source, so could be added directly. This PR doesn't (yet) contain the results because I'm not really sure if this should be in scope of the repo. There are quite a few (30K+) to add.