improved `discordant_read_pairs` metric definition, renamed as `pct_reads_properly_paired` - Githubissues

ga4gh / quality-control-wgs

Home for the GA4GH Quality Control of Whole Genome Sequencing metrics and reference implementations

https://www.ga4gh.org/product/wgs-quality-control-standards/

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improved `discordant_read_pairs` metric definition, renamed as `pct_reads_properly_paired` #13

Closed nicolas-bertin closed 8 months ago

nicolas-bertin commented 1 year ago

proposal to rename discordant_read_pairs metric as pct_reads_properly_paired and improve its definition from

https://github.com/ga4gh/quality-control-wgs/blob/e692682078a3f47b8160cc1ef74614227264b847/metrics_definitions/metrics_definitions.md?plain=1#L76-L82

to [Edit]

https://github.com/ga4gh/quality-control-wgs/blob/bddde198a26f1311a0188f8792b71d6fe704949d/metrics_definitions/metrics_definitions.md?plain=1#L51-L57

see #7

mhebrard commented 1 year ago

Fix Typo
Clarify MQ criteria - include all mapped reads - no MQ filter applied

https://github.com/ga4gh/quality-control-wgs/blob/bddde198a26f1311a0188f8792b71d6fe704949d/metrics_definitions/metrics_definitions.md?plain=1#L51-L57