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CSV (wikibase dump) -> Neo4j format #2

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NuriaQueralt opened this issue Dec 6, 2018 · 0 comments

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NuriaQueralt commented Dec 6, 2018 •

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Following the reasoning in #6, i am gonna update the library:

Nodes file

fill blank fields with "NA" (fillna())
rename: synonyms:IGNORE to synonyms (because synonyms includes name since they are merged)
[OPTIONAL] rename: name to name:IGNORE. This field contains "preflabel + (ID)" for those terms that have more than one ID.

Edges file

fill blank fields with "NA" (fillna())
rename: reference_date to reference_date:IGNORE
check all :TYPE (edge_type) are in CURIE format and no string, e.g. colocalizes_with. There is the problem of None edge type.. #4
- colocalizes with (RO:0002325)
- contributes to (RO:0002326)

match path=(n)-[r]-(m) return distinct type(r)

normalize string labels with all "space" not "underscore", e.g. has phenotype or has_genotype

match path=(n)-[r]-(m) return distinct r.property_label

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