gnomad_methods

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jkgoodrich

jkgoodrich

klaricch

klaricch

klaricch

Currently, VersionedResources will throw a KeyError when a version of a resource is requested does not exist. We should handle this with a better error message, alerting the user that...

mike-w-wilson

Update clinvar VCF to lateset release

3

ClinVar releases a new VCF every month. gnomAD v3.1 used the same VCF/HT as v3 which dates to Sept 2019. The new ClinVar resource should be added to the reference...

mike-w-wilson

Impute sex ploidy on dense data

1

The code for sex imputation refinement relies on both chromosome X and chromosome Y ploidy now that https://github.com/macarthur-lab/gnomad_hail/pull/127 has been merged. The code to generate chrX/Y ploidy exists for sparse...

ch-kr

`slack_notifications` uses the process name from `sys.argv` in notifications. https://github.com/broadinstitute/gnomad_methods/blob/0b8e1007aacabcb81e4093d9e315ac6f7c92651b/gnomad/utils/slack.py#L156-L172 However, someone may want notifications about multiple blocks in the same script. There should be a way to distinguish those...

nawatts

* [ ] constraint * [ ] pext * [ ] MNVs Create resource modules to load these in the same way we read in public resources (e.g., `public_resource.ht()`)

nawatts