dce21104b16337c132dea98bc763d74313381101
lrnassar
  Fri Jun 12 01:05:02 2026 -0700
varFreqs: rename combined-track shortLabels per the conversation with Max
on the ticket. varFreqsAffected -> "Disease cohorts" (was "Affected/Case
Individuals"); varFreqsBackground -> "Population reference" (was
"Population + Unaffected"). longLabels unchanged. refs #36642

diff --git src/hg/makeDb/trackDb/human/varFreqs.ra src/hg/makeDb/trackDb/human/varFreqs.ra
index 9e8b2ab5abe..8bf3d890953 100644
--- src/hg/makeDb/trackDb/human/varFreqs.ra
+++ src/hg/makeDb/trackDb/human/varFreqs.ra
@@ -1,25 +1,25 @@
 track varFreqs
 shortLabel SNV Frequencies
 longLabel SNV Frequencies from various cohorts or national projects
 group varRep
 type bed 12
 visibility hide
 superTrack on
 
         track varFreqsAffected
-        shortLabel Affected/Case Individuals
+        shortLabel Disease cohorts
         longLabel SNV Frequencies: variants in ~130,000 affected or case individuals (autism, schizophrenia, rare disease cohorts)
         type bigBed 9 +
         parent varFreqs on
         bigDataUrl /gbdb/$D/varFreqs/_affected/varFreqsAffected.bb
         visibility pack
         itemRgb on
         maxWindowToDraw 5000000
         priority 0.11
         mouseOver <b>Var:</b> ${name}<br><b>AA change:</b> ${aaChange}<br><b>Var type:</b> ${varType}<br><b>Conseq:</b> ${consequence}<br><b>Affected AF:</b> ${affectedAF}<br><b>Affected AC:</b> ${affectedAC}<br><b>Affected cohorts:</b> ${affectedCohorts}<br><b>Background AF:</b> ${backgroundAF}
         filterValues.affectedCohorts SPARK|SFARI SPARK WES,SFARI_WGS|SFARI SPARK WGS,GREGoR|GREGoR,SCHEMA|SCHEMA,GA4K|GA4K PacBio LR
         filterType.affectedCohorts multipleListOr
         filterLabel.affectedCohorts Affected/case cohort
         filterValues.backgroundSources AllOfUs|AllOfUs,SPARK|SFARI SPARK WES,SFARI_WGS|SFARI SPARK WGS,GenomeAsia|GenomeAsia SNVs,GenomeAsiaIndel|GenomeAsia Indels,NPM|NPM Singapore,KOVA|KOVA Korea,ToMMo|ToMMo Japan,FinnGen|FinnGen Finland,Saudi|Saudi,SweGen|SweGen Sweden,TOPMed|TOPMed,ABraOM|ABraOM Brazil,ALFA|ALFA,MGRB|MGRB Australia,HRC|HRC,SGDP|SGDP,HGDP1kG|gnomAD HGDP+1kG,GREGoR|GREGoR,SCHEMA|SCHEMA,CoLoRSdb|CoLoRSdb PacBio LR,SVatalog|SVatalog 101 10XG SR,Tishkoff180|Tishkoff 180 African WGS,WBBC|WBBC China,ChinaMAP|China ChinaMAP,GenomeIndia|GenomeIndia 9.7k WGS,GoNL|GoNL Netherlands ~13x SR
         filterType.backgroundSources multipleListOr
         filterLabel.backgroundSources Background source (population or unaffected)
@@ -330,31 +330,31 @@
         filterByRange.WBBCAF_South on
         filterLabel.WBBCAF_South WBBC China South Han AF
         filterByRange.WBBCAF_Lingnan on
         filterLabel.WBBCAF_Lingnan WBBC China Lingnan Han AF
         filterByRange.WBBCAC_North on
         filterLabel.WBBCAC_North WBBC China North Han AC
         filterByRange.WBBCAC_Central on
         filterLabel.WBBCAC_Central WBBC China Central Han AC
         filterByRange.WBBCAC_South on
         filterLabel.WBBCAC_South WBBC China South Han AC
         filterByRange.WBBCAC_Lingnan on
         filterLabel.WBBCAC_Lingnan WBBC China Lingnan Han AC
         skipEmptyFields on
 
         track varFreqsBackground
-        shortLabel Population + Unaffected
+        shortLabel Population reference
         longLabel SNV Frequencies: variants in ~1.5 million individuals from population cohorts and unaffected or control arms
         type bigBed 9 +
         parent varFreqs on
         bigDataUrl /gbdb/$D/varFreqs/_background/varFreqsBackground.bb
         visibility pack
         itemRgb on
         maxWindowToDraw 5000000
         priority 0.1
         mouseOver <b>Var:</b> ${name}<br><b>AA change:</b> ${aaChange}<br><b>Var type:</b> ${varType}<br><b>Conseq:</b> ${consequence}<br><b>Background AF:</b> ${backgroundAF}<br><b>Background AC:</b> ${backgroundAC}<br><b>Sources:</b> ${backgroundSources}<br><b>Affected AF:</b> ${affectedAF}
         filterValues.affectedCohorts SPARK|SFARI SPARK WES,SFARI_WGS|SFARI SPARK WGS,GREGoR|GREGoR,SCHEMA|SCHEMA,GA4K|GA4K PacBio LR
         filterType.affectedCohorts multipleListOr
         filterLabel.affectedCohorts Affected/case cohort
         filterValues.backgroundSources AllOfUs|AllOfUs,SPARK|SFARI SPARK WES,SFARI_WGS|SFARI SPARK WGS,GenomeAsia|GenomeAsia SNVs,GenomeAsiaIndel|GenomeAsia Indels,NPM|NPM Singapore,KOVA|KOVA Korea,ToMMo|ToMMo Japan,FinnGen|FinnGen Finland,Saudi|Saudi,SweGen|SweGen Sweden,TOPMed|TOPMed,ABraOM|ABraOM Brazil,ALFA|ALFA,MGRB|MGRB Australia,HRC|HRC,SGDP|SGDP,HGDP1kG|gnomAD HGDP+1kG,GREGoR|GREGoR,SCHEMA|SCHEMA,CoLoRSdb|CoLoRSdb PacBio LR,SVatalog|SVatalog 101 10XG SR,Tishkoff180|Tishkoff 180 African WGS,WBBC|WBBC China,ChinaMAP|China ChinaMAP,GenomeIndia|GenomeIndia 9.7k WGS,GoNL|GoNL Netherlands ~13x SR
         filterType.backgroundSources multipleListOr
         filterLabel.backgroundSources Background source (population or unaffected)