Ticket to track various v4.1 data loading / update requests
Loading requests:
[x] #1439 | (@phildarnowsky-broad) Update code parsing SV and CNV files to accommodate updates, including updated metrics order, updated genetic ancestry terms, update from using gender to sex karyotype and reload SV, CNVs
[x] (@rileyhgrant) Load demo with PCSK9 (see thread) to get feedback on new flags below
[x] (@rileyhgrant) Load demo that contains only new gene constraint results (HT path shared here; gs://gnomad/v4.1/constraint/metrics/gnomad.v4.1.constraint_metrics.ht)
[x] #1463 | (@rileyhgrant, @nadeaujoshua) Reload short variant exome and genome data
[x] #1443 | (@rileyhgrant) Update downloads page links to point to new data
[x] (riley to merge PRs, work done by methods team -- thank you!) Apply changes to help pages; current PRs:
[x] #1430 | HT help page -- Qin added a few minor edits due to the slightly tweaked joint freq HT schema
[x] #1433 | v4.0>v4.1 updates -- this PR has been approved and is ready to go (note that I added a minor update to the dataset selection page on Apr 4)
[x] #1456 | Exome capture regions
[x] #1465 | describe new joint freq stats
[x] #1476 | Add new flags to flags help page (new PR)
[x] #1488 | Update name of v4 non-UKB subset in dataset selection help page
[x] #1492 | Update joint frequency stats page to reflect different tests used -- PR approved/ready
[x] #1494 | Allele count help page -- PR approved/ready
[x] #1448 (@phildarnowsky-broad)| Make non-ukbb a selectable subset
Updates:
[x] #1423 | (@rileyhgrant) Add new flag indicating when a variant was not called in any data type
[x] #1442 | (@rileyhgrant) Add new flag for variants with discrepant frequencies between the exomes and genomes
[x] #1440 | (@rileyhgrant) Update stats page to include number of samples in the two of the v4.0 exomes subsets
[x] #1458 | (@rileyhgrant) Not necessarily v4.1, but update typos on stats page
Ticket to track various v4.1 data loading / update requests
Loading requests:
gs://gnomad/v4.1/constraint/metrics/gnomad.v4.1.constraint_metrics.ht
)Updates:
Feedback
Will add updates if I've missed anything and as we create links for some of the topics above!
Also including v4.1 release checklist
Moved to own issue for post v4 launch