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Kukuster / SumStatsRehab

GWAS summary statistics files QC tool
https://doi.org/10.1186/s12859-022-04920-7
MIT License
33 stars 6 forks source link

[minor] if an issue with p-value filed was identified, then issues in other fields on the same row are not counted in the report #3

Closed Kukuster closed 2 years ago

Kukuster commented 2 years ago

In the diagnose command (validate_GWASSS_entries.py) during the diagnosis of problems with a SNP entry (a row in a table), if an issue with p-value was identified (which is a first field that is checked), then other issues in the same row are not counted and not included in the invalid_entries.csv report.

The key block of the code that implements this behavior is at line 229 in the file validate_GWASSS_entries.py.