INCATools / INCATools/dosdp-tools

Need QC to determine whether TSV filler conforms to pattern var range

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Dominant language
Scala
Stars
33
Forks
5
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Description

For example, XPO is compiled using only[ DOSDP patterns](https://github.com/obophenotype/xenopus-phenotype-ontology/tree/master/src/patterns/dosdp-patterns) (no manual curation), which adds up to 3112 phenotypes. If I run dosdp-query against this, I get 2969 patterns generated (covering all five uPheno patterns). Does any one have an idea what could cause this? @balhoff

Contributor guide

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Research direction

Start by reproducing the dosdp-query run against the XPO DOSDP patterns linked in the issue and compare the 3112 compiled phenotypes with the 2969 generated patterns. Inspect the pattern variable ranges and TSV filler handling to identify which cases are omitted; done means the discrepancy is explained and covered by a regression check.

Written by the indexing model from the issue text.

Assessment

Tech stack
scala
Domain
tooling
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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