New modification statements #1161
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I found some places that potentially need to be updated if the new types are integrated: |
cthoyt
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Sep 15, 2020
indra/statements/statements.py
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| @@ -1005,6 +1020,66 @@ class Demethylation(RemoveModification): | |||
| """Demethylation modification.""" | |||
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| class Carboxylation(AddModification): | |||
| """Carboxylation modification.""" | |||
| pass | |||
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if you have a docstring, you actually don't need a pass
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Maybe it makes sense to add a bit of metadata along with each statement type to align them with related entries in other controlled vocabularies. For example, neddylation corresponds to the GO biological process "protein neddylation" (GO:0045116). I did this for PyBEL and you could copy relevant parts if you think this is a good idea. No single controlled vocabulary is covering all types of modifications, though. See: https://github.com/pybel/pybel/blob/57b24a9ddf6d5d73d82c92294ed2186ddf4443c5/src/pybel/language.py#L320-L524 |
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This PR adds new Modification statement types: