e7627f2c8a0215940699e390bf24a17cb60fdeec gperez2 Sun Aug 23 22:22:01 2026 -0700 Changing the v2/v4/v4.1 constraint subtracks to hide by default. Updating the pliByTranscriptV4_1_1's mouseOver, plus some other minor updates. refs #37351 diff --git src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.public.ra src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.public.ra index 45f4d4e7614..861623a7b4b 100644 --- src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.public.ra +++ src/hg/makeDb/trackDb/human/hg38/gnomad.constraint.public.ra @@ -1,178 +1,178 @@ track gnomadPLI parent gnomadVariants shortLabel gnomAD Constraint Metrics longLabel Genome Aggregation Database (gnomAD) Predicted Constraint Metrics (LOEUF, pLI, and Z-scores) compositeTrack On group varRep type bigBed 12 labelFields name,geneName dataVersion Release v4.1 (April 19, 2024), Release v4 (November 2023), Release 2.1.1 (March 6, 2019) subGroup1 view Views v2=constraintV2 v4=constraintV4 v4_1=constraintV4.1 html gnomadPLI.html visibility hide track constraintV2 parent gnomadPLI off shortLabel Constraint V2 longLabel gnomAD Constraint Metrics V2 view v2 visibility pack type bigBed 12 + track pliByGene shortLabel Gene LoF longLabel gnomAD Predicted Loss of Function Constraint Metrics By Gene (LOEUF and pLI) v2.1.1 subGroups view=v2 type bigBed 12 + itemRgb on searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByGene.bb url https://gnomad.broadinstitute.org/gene/$$?dataset=gnomad_r2_1 urlLabel View this Gene on the gnomAD browser labelFields name,geneName defaultLabelFields geneName filter._pli 0:1 filterLabel._pli Show only items between this pLI range filterByRange._pli on - parent constraintV2 on + parent constraintV2 off priority 1 mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF track missenseByGene shortLabel Gene Missense longLabel gnomAD Predicted Missense Constraint Metrics By Gene (Z-scores) v2.1.1 subGroups view=v2 type bigBed 12 + searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByGene.bb url https://gnomad.broadinstitute.org/gene/$$?dataset=gnomad_r2_1 urlLabel View this Gene on the gnomAD browser labelFields name,geneName filter._zscore -19:11 itemRgb on filterLabel._zscore Show only items between this Z-score range filterByRange._zscore on parent constraintV2 off priority 2 mouseOver Z: $_zscore<br> $synonymous<br> $missense track pliByTranscript shortLabel Transcript LoF v2 longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v2.1.1 subGroups view=v2 type bigBed 12 + itemRgb on searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r2_1 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._pli 0:1 filterLabel._pli Show only items between this pLI range filterByRange._pli on parent constraintV2 off priority 2 mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF track missenseByTranscript shortLabel Transcript Missense v2 longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v2.1.1 subGroups view=v2 type bigBed 12 + searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r2_1 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._zscore -20:11 filterLabel._zscore Show only items between this Z-score range filterByRange._zscore on parent constraintV2 off priority 2 mouseOver Z: $_zscore<br> $synonymous<br> $missense track constraintV4 parent gnomadPLI off shortLabel Constraint V4 longLabel gnomAD Constraint Metrics V4 view v4 visibility hide type bigBed 12 + track pliByTranscriptV4 shortLabel Transcript LoF v4 longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4 subGroups view=v4 type bigBed 12 + itemRgb on searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.v4.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._pli 0:1 filterLabel._pli Show only items between this pLI range filterByRange._pli on - parent constraintV4 + parent constraintV4 off priority 2 mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF track missenseByTranscriptV4 shortLabel Transcript Missense v4 longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4 subGroups view=v4 type bigBed 12 + searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.v4.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._zscore -20:11 filterLabel._zscore Show only items between this Z-score range filterByRange._zscore on - parent constraintV4 + parent constraintV4 off priority 2 mouseOver Z: $_zscore<br> $synonymous<br> $missense track constraintV4_1 parent gnomadPLI off shortLabel Constraint V4.1 longLabel gnomAD Constraint Metrics V4.1 view v4_1 visibility pack type bigBed 12 + track pliByTranscriptV4_1 shortLabel Transcript LoF v4.1 longLabel gnomAD Predicted Loss of Function Constraint Metrics By Transcript (LOEUF and pLI) v4.1 subGroups view=v4_1 type bigBed 12 + itemRgb on searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/pliByTranscript.v4.1.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._pli 0:1 filterLabel._pli Show only items between this pLI range filterByRange._pli on - parent constraintV4_1 + parent constraintV4_1 off priority 2 mouseOver LOEUF: $_loeuf<br> pLI: $_pli<br> $synonymous<br> $pLoF track missenseByTranscriptV4_1 shortLabel Transcript Missense v4.1 longLabel gnomAD Predicted Missense Constraint Metrics By Transcript (Z-scores) v4.1 subGroups view=v4_1 type bigBed 12 + searchIndex name,geneName bigDataUrl /gbdb/hg38/gnomAD/pLI/missenseByTranscript.v4.1.bb url https://gnomad.broadinstitute.org/transcript/$$?dataset=gnomad_r4 urlLabel View this Transcript on the gnomAD browser labelFields name,geneName filter._zscore -20:11 filterLabel._zscore Show only items between this Z-score range filterByRange._zscore on - parent constraintV4_1 + parent constraintV4_1 off priority 2 mouseOver Z: $_zscore<br> $synonymous<br> $missense