cc6ef4c74d072de9c22e8bb88ab0e0983e6f2f47
max
  Wed Jul 22 18:09:16 2026 -0700
lrSv cardSv: switch CARD count fields from carrier counts to allele counts

The NIH CARD provider republished the display bigBed with the count columns
changed to diploid allele counts (alleleCount = nabecAlleleCount +
hbccAlleleCount). Re-downloaded and rebuilt; renamed the schema fields to AC /
nabecAc / hbccAc, updated filter ranges (0:702, 0:410, 0:292) and labels to
allele counts, and reworded cardSv.html and the lrSv.html summary. Also noted
there are no Alzheimer's cases in these cohorts. Re-ran the merge so lrSvAll
carries CARD's allele counts. refs #36258

diff --git src/hg/makeDb/trackDb/human/lrSv.ra src/hg/makeDb/trackDb/human/lrSv.ra
index c9d4c41ee99..02c0c62e90e 100644
--- src/hg/makeDb/trackDb/human/lrSv.ra
+++ src/hg/makeDb/trackDb/human/lrSv.ra
@@ -509,53 +509,53 @@
     filterByRange.insLen on
     filterLabel.insLen Insertion Length
     filter.geneCount 0:200
     filterByRange.geneCount on
     filterLabel.geneCount Gene Count
     skipEmptyFields on
 
     track cardSv
     parent longReadVariants
     bigDataUrl /gbdb/$D/lrSv/card.bb
     shortLabel CARD 351 SVs
     longLabel Structural Variants from 351 Brain Samples (NIH CARD Long-read ONT, NABEC + HBCC)
     type bigBed 9 +
     itemRgb on
     visibility hide
-    mouseOver <b>Var</b>: ${name} (${svType})<br><b>SV len</b>: ${svLen}<br><b>Ins len</b>: ${insLen}<br><b>AF</b>: ${alleleFreq}<br><b>Carriers</b>: ${AC} (NABEC ${nabecCount}, HBCC ${hbccCount})
+    mouseOver <b>Var</b>: ${name} (${svType})<br><b>SV len</b>: ${svLen}<br><b>Ins len</b>: ${insLen}<br><b>AF</b>: ${alleleFreq}<br><b>AC</b>: ${AC} (NABEC ${nabecAc}, HBCC ${hbccAc})
     filterValues.svType DEL,INS,INV,DUP
     filterType.svType multipleListOr
     filterLabel.svType SV Type
     filter.svLen 0:30282742
     filterByRange.svLen on
     filterLabel.svLen SV Length
     filter.insLen 0:92867161
     filterByRange.insLen on
     filterLabel.insLen Insertion Length
-    filter.AC 1:351
+    filter.AC 0:702
     filterByRange.AC on
-    filterLabel.AC Carrier Count
+    filterLabel.AC Allele Count
     filter.alleleFreq 0:1
     filterByRange.alleleFreq on
     filterLimits.alleleFreq 0:1
     filterLabel.alleleFreq Allele Frequency
-    filter.nabecCount 0:205
-    filterByRange.nabecCount on
-    filterLabel.nabecCount NABEC Carriers (European ancestry)
-    filter.hbccCount 0:146
-    filterByRange.hbccCount on
-    filterLabel.hbccCount HBCC Carriers (African/African-admixed ancestry)
+    filter.nabecAc 0:410
+    filterByRange.nabecAc on
+    filterLabel.nabecAc NABEC Allele Count (European ancestry)
+    filter.hbccAc 0:292
+    filterByRange.hbccAc on
+    filterLabel.hbccAc HBCC Allele Count (African/African-admixed ancestry)
 
     track noyvertSv
     parent longReadVariants
     bigDataUrl /gbdb/$D/lrSv/noyvert.bb
     shortLabel Noyvert 888 SVs
     longLabel Structural Variants from 888 Multi-ancestry Individuals (Oxford Nanopore, Noyvert et al. 2025)
     type bigBed 9 +
     itemRgb on
     visibility hide
     mouseOver <b>Var</b>: ${name} (${svType})<br><b>SV len</b>: ${svLen}<br><b>Ins len</b>: ${insLen}<br><b>AF</b>: ${AF}<br><b>AC</b>: ${AC}/${AN}<br><b>GWAS hits</b>: ${nGwas}
     filterValues.svType DEL,INS,INV,DUP,BND
     filterType.svType multipleListOr
     filterLabel.svType SV Type
     filter.svLen 0:28634664
     filterByRange.svLen on