366afa4a74c46ec6fb2b667a2902a873feec40cf
max
  Mon Apr 20 23:00:05 2026 -0700
varFreqsAll: rebuild combined bigBed to include GA4K and CoLoRSdb

Regenerate the All Databases Combined track with the two long-read
PacBio subtracks (GA4K 552 samples and CoLoRSdb v1.2.0 1,027 samples)
that were added to varFreqs since the March build. Source count rises
from 21 to 23 databases; final bigBed is 37.7 GB with 1.17B records
and 113 fields. Updates varFreqs.ra filterValues.sources and per-
database AF/AC filters for the two new sources, and databases.tsv
+ varFreqs.txt (build notes).

refs #36642

diff --git src/hg/makeDb/trackDb/human/varFreqs.ra src/hg/makeDb/trackDb/human/varFreqs.ra
index 341609e63e4..e336ad0a36c 100644
--- src/hg/makeDb/trackDb/human/varFreqs.ra
+++ src/hg/makeDb/trackDb/human/varFreqs.ra
@@ -11,31 +11,31 @@
         longLabel Variant Frequencies: All Databases Combined with Consequence Annotations
         type bigBed 9 +
         parent varFreqs on
         bigDataUrl /gbdb/$D/varFreqs/varFreqsAll.bb
         visibility dense
         itemRgb on
         maxWindowToDraw 5000000
         priority 0.1
         #mouseOver $aaChange $dnaChange
         # Variant type and consequence filters
         filterValues.varType SNV|SNV,INS|Insertion,DEL|Deletion,MNV|MNV
         filterLabel.varType Variant Type
         filterValues.consequence missense|Missense,synonymous|Synonymous,stop_gained|Stop Gained,frameshift|Frameshift,splice_donor|Splice Donor,splice_acceptor|Splice Acceptor,intron|Intron,.|Intergenic
         filterLabel.consequence Consequence
         # Source database filter
-        filterValues.sources AllOfUs|AllOfUs,SPARK|SPARK WES,SFARI_WGS|SFARI WGS,GenomeAsia|GenomeAsia SNVs,GenomeAsiaIndel|GenomeAsia Indels,KOVA|KOVA Korea,ToMMo|ToMMo Japan,IndiGen|IndiGenomes India,FinnGen|FinnGen Finland,Saudi|Saudi,SweGen|SweGen Sweden,TOPMed|TOPMed,ABraOM|ABraOM Brazil,ALFA|ALFA,MGRB|MGRB Australia,HRC|HRC,MexBB|Mexico Biobank,SGDP|SGDP,HGDP1kG|gnomAD HGDP+1kG,GREGoR|GREGoR,SCHEMA|SCHEMA
+        filterValues.sources AllOfUs|AllOfUs,SPARK|SPARK WES,SFARI_WGS|SFARI WGS,GenomeAsia|GenomeAsia SNVs,GenomeAsiaIndel|GenomeAsia Indels,KOVA|KOVA Korea,ToMMo|ToMMo Japan,IndiGen|IndiGenomes India,FinnGen|FinnGen Finland,Saudi|Saudi,SweGen|SweGen Sweden,TOPMed|TOPMed,ABraOM|ABraOM Brazil,ALFA|ALFA,MGRB|MGRB Australia,HRC|HRC,MexBB|Mexico Biobank,SGDP|SGDP,HGDP1kG|gnomAD HGDP+1kG,GREGoR|GREGoR,SCHEMA|SCHEMA,GA4K|GA4K PacBio LR,CoLoRSdb|CoLoRSdb PacBio LR
         filterType.sources multipleListOr
         filterLabel.sources Source Database
         # Length filters
         filterByRange.refLen on
         filterLabel.refLen Reference Length
         filterByRange.altLen on
         filterLabel.altLen Alternate Length
         filterByRange.varLen on
         filterLabel.varLen Length Change
         # Max AF filter
         filterByRange.maxAF on
         filterLabel.maxAF Max Allele Frequency
         filterLimits.maxAF 0:1
         # Total AC filter
         filterByRange.totalAC on
@@ -71,30 +71,34 @@
         filterLabel.ALFAAF ALFA AF
         filterByRange.MGRBAF on
         filterLabel.MGRBAF MGRB Australia AF
         filterByRange.HRCAF on
         filterLabel.HRCAF HRC AF
         filterByRange.MexBBAF on
         filterLabel.MexBBAF Mexico Biobank AF
         filterByRange.SGDPAF on
         filterLabel.SGDPAF SGDP AF
         filterByRange.HGDP1kGAF on
         filterLabel.HGDP1kGAF gnomAD HGDP+1kG AF
         filterByRange.GREGoRAF on
         filterLabel.GREGoRAF GREGoR AF
         filterByRange.SCHEMAAF on
         filterLabel.SCHEMAAF SCHEMA AF
+        filterByRange.GA4KAF on
+        filterLabel.GA4KAF GA4K PacBio LR AF
+        filterByRange.CoLoRSdbAF on
+        filterLabel.CoLoRSdbAF CoLoRSdb PacBio LR AF
         # Per-database AC filters
         filterByRange.AllOfUsAC on
         filterLabel.AllOfUsAC AllOfUs AC
         filterByRange.SPARKAC on
         filterLabel.SPARKAC SPARK WES AC
         filterByRange.SFARI_WGSAC on
         filterLabel.SFARI_WGSAC SFARI WGS AC
         filterByRange.GenomeAsiaAC on
         filterLabel.GenomeAsiaAC GenomeAsia SNVs AC
         filterByRange.GenomeAsiaIndelAC on
         filterLabel.GenomeAsiaIndelAC GenomeAsia Indels AC
         filterByRange.KOVAAC on
         filterLabel.KOVAAC KOVA Korea AC
         filterByRange.ToMMoAC on
         filterLabel.ToMMoAC ToMMo Japan AC
@@ -114,30 +118,34 @@
         filterLabel.ALFAAC ALFA AC
         filterByRange.MGRBAC on
         filterLabel.MGRBAC MGRB Australia AC
         filterByRange.HRCAC on
         filterLabel.HRCAC HRC AC
         filterByRange.MexBBAC on
         filterLabel.MexBBAC Mexico Biobank AC
         filterByRange.SGDPAC on
         filterLabel.SGDPAC SGDP AC
         filterByRange.HGDP1kGAC on
         filterLabel.HGDP1kGAC gnomAD HGDP+1kG AC
         filterByRange.GREGoRAC on
         filterLabel.GREGoRAC GREGoR AC
         filterByRange.SCHEMAAC on
         filterLabel.SCHEMAAC SCHEMA AC
+        filterByRange.GA4KAC on
+        filterLabel.GA4KAC GA4K PacBio LR AC
+        filterByRange.CoLoRSdbAC on
+        filterLabel.CoLoRSdbAC CoLoRSdb PacBio LR AC
         # Population-specific AF filters
         # AllOfUs populations
         filterByRange.AllOfUsAF_AFR on
         filterLabel.AllOfUsAF_AFR AllOfUs African AF
         filterByRange.AllOfUsAF_AMR on
         filterLabel.AllOfUsAF_AMR AllOfUs Indigenous American AF
         filterByRange.AllOfUsAF_EAS on
         filterLabel.AllOfUsAF_EAS AllOfUs East Asian AF
         filterByRange.AllOfUsAF_EUR on
         filterLabel.AllOfUsAF_EUR AllOfUs European AF
         filterByRange.AllOfUsAF_OCE on
         filterLabel.AllOfUsAF_OCE AllOfUs Oceanian AF
         filterByRange.AllOfUsAF_SAS on
         filterLabel.AllOfUsAF_SAS AllOfUs South Asian AF
         filterByRange.AllOfUsAC_AFR on