b687dd9018670941ce30f8a4582d6597c5a974d8 lrnassar Tue Sep 1 14:57:43 2026 -0700 lrSv1kLin: fix 2bp insertion span, drop dead numConsolidated field, refresh lrSvAll merge. refs #38099 The Lin 1218 VCFs set INFO/END = POS+1 on insertions, and the converter took chromEnd from END, so every insertion was drawn 2bp wide with svLen 2 instead of the 1bp anchor base. That contradicted the track's own description page and the coordinate convention in the makeDoc, and it kept 107,980 Lin insertions from merging in lrSvAll. Insertions now clamp chromEnd to the anchor; deletions are unchanged and still verify span == |SVLEN| against the source VCFs. Dropped numConsolidated from the converter and the .as: the NumConsolidated INFO key is declared in the VCF header but never appears on a data line, so the column was 0 on all 1.2M rows and added a meaningless line to every detail page. Rebuilt lin1218 on hg38 and hs1 (item counts and variant names unchanged) and re-ran the merge: lrSvAll 2,963,093 -> 2,855,267 rows as the duplicate insertion rows collapse. Bumped seven filter.svLen/insLen maxima in lrSv.ra that were short of the data after the August deletion narrowing, three of them only visible on hs1. lrSvAll.html said the 1000 Genomes linear set was not in the merge, which is no longer true, and gave no warning that sourceCount double-counts because Lin1218 already absorbs HPRC, HGSVC3 and both 1KG ONT callsets. Corrected the merge key description and refreshed ten stale cells in the lrSv.html summary table. diff --git src/hg/makeDb/trackDb/human/lrSv.ra src/hg/makeDb/trackDb/human/lrSv.ra index 11a432fa725..c8265b73f02 100644 --- src/hg/makeDb/trackDb/human/lrSv.ra +++ src/hg/makeDb/trackDb/human/lrSv.ra @@ -1,669 +1,669 @@ track longReadVariants superTrack on shortLabel Long-read SVs longLabel Structural Variants from Long-read Sequencing html lrSv group varRep visibility hide pennantIcon New red ../goldenPath/newsarch.html#071626 "Released Jul. 16, 2026" # Supertrack-level filters. These are rendered on the supertrack's own # hgTrackUi page (superTrackUi in hgTrackUi.c). Cart values stored under # "longReadVariants.filter.<field>.min/max" are inherited at read time by every # subtrack via cartOptionalStringClosestToHome() walking tdb->parent. A # subtrack-level filter always wins over the supertrack-level one. filterValues.svType DEL|DEL (Deletion),INS|INS (Insertion),INV|INV (Inversion),CPX|CPX (Complex rearrangement),DUP|DUP (Duplication),INSDEL|INSDEL (Insertion-deletion),MIXED|MIXED (multi-allele snarl),TRA|TRA (Translocation),BND|BND (Breakend) filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:250000000 filterByRange.svLen on filterLabel.svLen SV Length (bp) filter.insLen 0:30176500 filterByRange.insLen on filterLabel.insLen Insertion Length (bp) filter.AC 0:30000 filterByRange.AC on filterLabel.AC Allele Count noScoreFilter on include lrSvAll.ra track colorsDbSv parent longReadVariants priority 1 bigDataUrl /gbdb/$D/lrSv/colorsDb/sv.$D.bb shortLabel CoLoRSdb 1427 SVs longLabel Structural Variants from 1,427 CoLoRSdb samples (Consortium of Long-Read Sequencing, PacBio HiFi) type bigBed 9 + itemRgb on visibility hide dataVersion v1.2.0 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 (Hom $acHom, Het $acHet, Hemi $acHemi)<br><b>Samples</b>: $NS filterValues.svType DEL,INS,INV,DUP filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:101381 + filter.svLen 0:111110 filterByRange.svLen on filterLabel.svLen SV Length (bp) filter.insLen 0:18724 filterByRange.insLen on filterLabel.insLen Insertion Length (bp) filter.AC 0:2854 filterByRange.AC on filterLabel.AC Alt Allele Count (AC) filter.AF 0:1 filterByRange.AF on filterLimits.AF 0:1 filterLabel.AF Allele Frequency (AF) skipEmptyFields on track lrSv1kgOnt parent longReadVariants priority 4 bigDataUrl /gbdb/$D/lrSv/1kgOnt.bb shortLabel 1KG Vienna ONT SVs longLabel Structural Variants from 1,019 1000 Genomes samples (Vienna ONT; Schloissnig 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>Type</b>: $insType<br><b>Family</b>: $family<br><b>AC</b>: $AC<br><b>AF</b>: $alleleFreq filterValues.svType DEL,INS,CPX filterType.svType multipleListOr filterLabel.svType SV Type filterValues.insType COMPLEX_DUP,DUP,DUP_INTERSPERSED,INV_DUP,NUMT,PSD,VNTR,chimera,orphan,partnered,solo filterType.insType multipleListOr filterLabel.insType Insertion/Deletion Type filterValues.family Alu,HERVK,L1,LTR5_Hs,SVA filterType.family multipleListOr filterLabel.family Transposon Family filter.svLen 0:49171 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:48091 filterByRange.insLen on filterLabel.insLen Insertion Length filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency filter.AC 0:1816 filterByRange.AC on filterLabel.AC Allele Count skipEmptyFields on dataVersion 1.1 track gustafsonSv parent longReadVariants priority 5 bigDataUrl /gbdb/$D/lrSv/gustafson.bb shortLabel 1KG UW ONT SVs longLabel Structural Variants from 100 1000 Genomes samples (University of Washington ONT; Gustafson et al. 2024) 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>AC</b>: $AC<br><b>Samples</b>: $sampleCount filterValues.svType DEL,INS,DUP,INV filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:98289 + filter.svLen 0:98290 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:25094 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:200 filterByRange.AC on filterLabel.AC Allele Count (placeholder) filter.sampleCount 1:100 filterByRange.sampleCount on filterLabel.sampleCount Number of Carrier Samples skipEmptyFields on track noyvertSv parent longReadVariants priority 6 bigDataUrl /gbdb/$D/lrSv/noyvert.bb shortLabel 1KG Boehringer ONT SVs longLabel Structural Variants from 888 1000 Genomes samples (Boehringer ONT; 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>: ${nGwas} filterValues.svType DEL,INS,INV,DUP,BND filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:28634664 filterByRange.svLen on filterLabel.svLen SV Length (bp) filter.insLen 0:45109 filterByRange.insLen on filterLabel.insLen Insertion Length (bp) filter.AC 0:1776 filterByRange.AC on filterLabel.AC Allele Count (approx) filter.AF 0:1 filterByRange.AF on filterLimits.AF 0:1 filterLabel.AF Allele Frequency filter.afAfr 0:1 filterByRange.afAfr on filterLimits.afAfr 0:1 filterLabel.afAfr AF African filter.afAmr 0:1 filterByRange.afAmr on filterLimits.afAmr 0:1 filterLabel.afAmr AF Admixed American filter.afEas 0:1 filterByRange.afEas on filterLimits.afEas 0:1 filterLabel.afEas AF East Asian filter.afEur 0:1 filterByRange.afEur on filterLimits.afEur 0:1 filterLabel.afEur AF European filter.afSas 0:1 filterByRange.afSas on filterLimits.afSas 0:1 filterLabel.afSas AF South Asian filter.nGwas 0:11 filterByRange.nGwas on filterLabel.nGwas UK Biobank GWAS Hit Count filter.r2Loo 0:1 filterByRange.r2Loo on filterLimits.r2Loo 0:1 filterLabel.r2Loo Imputation r2 (leave-one-out) filter.concordanceLoo 0:1 filterByRange.concordanceLoo on filterLimits.concordanceLoo 0:1 filterLabel.concordanceLoo Minor Allele Concordance (leave-one-out) skipEmptyFields on track lrSv1kLin parent longReadVariants priority 3 bigDataUrl /gbdb/$D/lrSv/lin1218.bb shortLabel 1KG Lin 1218 SVs longLabel Structural Variants from 1,218 1000 Genomes samples (long-read merge; Lin et al.) 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>AC</b>: $AC/$AN<br><b>AF</b>: $AF<br><b>AF (African)</b>: $afAfr<br><b>AF (European)</b>: $afEur<br><b>Samples</b>: $NS filterValues.svType DEL,INS filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:99565 + filter.svLen 0:99691 filterByRange.svLen on filterLabel.svLen SV Length (bp) filter.insLen 0:99968 filterByRange.insLen on filterLabel.insLen Insertion Length (bp) filter.AC 0:2436 filterByRange.AC on filterLabel.AC Allele Count filter.AF 0:1 filterByRange.AF on filterLimits.AF 0:1 filterLabel.AF Allele Frequency filter.afAfr 0:1 filterByRange.afAfr on filterLimits.afAfr 0:1 filterLabel.afAfr AF African filter.afAmr 0:1 filterByRange.afAmr on filterLimits.afAmr 0:1 filterLabel.afAmr AF Admixed American filter.afEas 0:1 filterByRange.afEas on filterLimits.afEas 0:1 filterLabel.afEas AF East Asian filter.afEur 0:1 filterByRange.afEur on filterLimits.afEur 0:1 filterLabel.afEur AF European filter.afSas 0:1 filterByRange.afSas on filterLimits.afSas 0:1 filterLabel.afSas AF South Asian filter.NS 1:1218 filterByRange.NS on filterLabel.NS Samples with Genotype Data skipEmptyFields on track aou1kSv parent longReadVariants priority 2 bigDataUrl /gbdb/$D/lrSv/aou1k.bb shortLabel AoU 1027 SVs longLabel Structural Variants from 1,027 All of Us samples (PacBio HiFi) 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>AC (approx)</b>: $AC<br><b>AF (African)</b>: $afAfr<br><b>AF (European)</b>: $afEur filterValues.svType DEL,INS filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:9905 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:9998 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:2054 filterByRange.AC on filterLabel.AC Allele Count (approx) filterByRange.afAfr on filterLimits.afAfr 0:1 filterLabel.afAfr AF African filterByRange.afEur on filterLimits.afEur 0:1 filterLabel.afEur AF European filterByRange.afEas on filterLimits.afEas 0:1 filterLabel.afEas AF East Asian skipEmptyFields on track han945Sv parent longReadVariants priority 12 bigDataUrl /gbdb/$D/lrSv/han945.bb shortLabel Han 945 SVs longLabel Structural Variants from 945 Han Chinese samples (long-read) 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>AC</b>: $AC<br><b>Samples</b>: $sampleCount filterValues.svType DEL,INS,DUP,INV,TRA filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:99743 + filter.svLen 0:99744 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:27242 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:1890 filterByRange.AC on filterLabel.AC Allele Count (approx 2*SUPP) filter.sampleCount 1:945 filterByRange.sampleCount on filterLabel.sampleCount Number of Supporting Samples filter.alleleFreq 0:1 filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency skipEmptyFields on urls chr2="hgTracks?position=$$" track tommoJpSv parent longReadVariants priority 14 bigDataUrl /gbdb/$D/lrSv/tommoJp.bb shortLabel ToMMo 333 SVs longLabel Structural Variants from 333 Japanese samples (ToMMo, 111 trios) 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>AC</b>: $AC filterValues.svType DEL,INS filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:99985 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:30649 filterByRange.insLen on filterLabel.insLen Insertion Length filter.alleleFreq 0:1 filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency filter.AC 0:444 filterByRange.AC on filterLabel.AC Allele Count track ga4kSv parent longReadVariants priority 16 bigDataUrl /gbdb/$D/lrSv/ga4kSv.bb shortLabel GA4K 502 SVs longLabel Structural Variants from 502 GA4K samples (Children's Mercy, pediatric rare disease; PacBio HiFi) 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>AC (approx)</b>: $AC<br><b>AF</b>: $alleleFreq<br><b>Carriers</b>: $carrierCount/$sampleTotal filterValues.svType DEL,INS,DUP,INV filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:809711 + filter.svLen 0:809712 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:14923 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:996 filterByRange.AC on filterLabel.AC Allele Count (approx) filter.alleleFreq 0:1 filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency filter.carrierCount 1:498 filterByRange.carrierCount on filterLabel.carrierCount Number of Carrier Samples track decodeSv parent longReadVariants priority 11 bigDataUrl /gbdb/$D/lrSv/decodeSv.bb shortLabel deCODE 3622 SVs longLabel Structural Variants from 3,622 deCODE samples (Icelandic; Oxford Nanopore) type bigBed 9 + itemRgb on visibility hide mouseOver <b>Var</b>: $name ($svType)<br><b>SV len</b>: $svLen<br><b>Ins len</b>: $insLen filterValues.svType DEL,INS,INSDEL filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:861080 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:22130 filterByRange.insLen on filterLabel.insLen Insertion Length skipEmptyFields on track hprc2v21Sv parent longReadVariants priority 7 bigDataUrl /gbdb/$D/lrSv/hprc2v21.bb shortLabel HPRC v2.1 233 SVs longLabel Structural Variants from 233 HPRC v2.1 assemblies (minigraph-cactus pangenome graph) 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>AC</b>: $AC/$alleleNumber<br><b>Samples</b>: $nSamples filterValues.svType INS,DEL filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:99835 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:1064897 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:463 filterByRange.AC on filterLabel.AC Allele Count filter.alleleFreq 0:1 filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency filter.snarlLevel 0:7 filterByRange.snarlLevel on filterLabel.snarlLevel Snarl Level skipEmptyFields on # hprc2JasmineSv commented out: the Jasmine-merged HPRC v2 multi-caller # set is a test/comparison callset (the Hall lab is not happy with it) and # is not for release. bigBed, .as, converter and makeDoc are retained. # refs #36258 #track hprc2JasmineSv #parent longReadVariants #bigDataUrl /gbdb/$D/lrSv/hprc2Jasmine.bb #shortLabel HPRC2 Jasmine 231 SVs #longLabel Structural Variants from 231 HPRC v2 Assemblies (Jasmine merge of 14 SV callers) #type bigBed 9 + #itemRgb on #visibility dense #mouseOver <b>$name</b> ($svType) svLen=$svLen insLen=$insLen samples=$nSamples/$alleleNumber AF=$alleleFreq callers=$nCallers ($callers) #filterValues.svType DEL,INS #filterType.svType multipleListOr #filterLabel.svType SV Type #filter.svLen 0:30176500 #filterByRange.svLen on #filterLabel.svLen SV Length #filter.insLen 0:30176500 #filterByRange.insLen on #filterLabel.insLen Insertion Length #filter.AC 0:231 #filterByRange.AC on #filterLabel.AC Carrier Sample Count #filter.alleleFreq 0:1 #filterByRange.alleleFreq on #filterLimits.alleleFreq 0:1 #filterLabel.alleleFreq Carrier Frequency #filter.nCallers 1:14 #filterByRange.nCallers on #filterLabel.nCallers Number of Supporting Callers #filterValues.callers DELLY,DeBreak,DeepVariant,PAV,SVDSS,SVIM,SVIM-asm,Sniffles2,cuteSV,cuteSV-asm,dipcall,longcallD,pbsv,sawfish #filterType.callers multipleListAnd #filterLabel.callers Supporting Callers #filterValues.sources PAV,dipcall,longcallD #filterType.sources multipleListAnd #filterLabel.sources Source Pipeline #skipEmptyFields on track hgsvc2Sv parent longReadVariants priority 9 bigDataUrl /gbdb/$D/lrSv/hgsvc2.bb shortLabel HGSVC2 32 SVs longLabel Structural Variants from 32 HGSVC2 assemblies (freeze 4; Ebert et al. 2021) 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>Samples</b>: $sampleCount<br><b>AC</b>: $AC<br><b>AF</b>: $popAllAf filterValues.svType DEL,INS,INV filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:57207414 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:108546 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 1:35 filterByRange.AC on filterLabel.AC Allele Count (carrier haplotypes) filter.sampleCount 1:35 filterByRange.sampleCount on filterLabel.sampleCount Sample Count filterValues.refTrf True,False filterType.refTrf multipleListOr filterLabel.refTrf In Tandem Repeat filter.refSd 0:1 filterByRange.refSd on filterLimits.refSd 0:1 filterLabel.refSd Segmental Duplication Overlap skipEmptyFields on track hgsvc3Sv parent longReadVariants priority 8 bigDataUrl /gbdb/$D/lrSv/hgsvc3.bb shortLabel HGSVC3 65 SVs longLabel Structural Variants from 65 HGSVC3 assemblies (diverse ancestry; HiFi + ONT) 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>Samples</b>: $sampleCount<br><b>AC</b>: $AC filterValues.svType DEL,INS,INV filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:30176500 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:30176500 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 1:136 filterByRange.AC on filterLabel.AC Allele Count (carrier haplotypes) filter.sampleCount 1:65 filterByRange.sampleCount on filterLabel.sampleCount Sample Count filterValues.refTrf True,False filterType.refTrf multipleListOr filterLabel.refTrf In Tandem Repeat filter.refSd 0:1 filterByRange.refSd on filterLimits.refSd 0:1 filterLabel.refSd Segmental Duplication Overlap skipEmptyFields on # NOT FOR RELEASE: preliminary and unpublished (Kim et al. 2026 not out yet), # and the callset has breakend artifacts up to 190 Mb (e.g. a single "INV" # spanning all of chr4). Held on dev/alpha and kept out of the lrSvAll merge # (removed from databases.tsv) until the data is published and cleaned. track kwanhoSv parent longReadVariants release alpha bigDataUrl /gbdb/$D/lrSv/kwanho.bb shortLabel Kim PD 100 prelim longLabel Structural Variants from 100 Post-mortem Brains (Parkinson's disease, ILBD, Control; Kim et al. 2026, PacBio HiFi) - PRELIMINARY, data to be updated, contact the authors before using type bigBed 9 + itemRgb on visibility dense mouseOver <b>Var</b>: $name ($svType)<br><b>SV len</b>: $svLen<br><b>Ins len</b>: $insLen<br><b>AC</b>: $AC<br><b>AF (PD)</b>: $afPd<br><b>AF (HC)</b>: $afHc<br><b>Case-control diff</b>: $differentialRate filterValues.svType DEL,INS,DUP,INV filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:200000000 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:20145 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:200 filterByRange.AC on filterLabel.AC Allele Count (PD+HC+ILBD) filter.qual 0:100 filterByRange.qual on filterLabel.qual Quality filter.afPd 0:1 filterByRange.afPd on filterLimits.afPd 0:1 filterLabel.afPd Allele Frequency (PD) filter.afHc 0:1 filterByRange.afHc on filterLimits.afHc 0:1 filterLabel.afHc Allele Frequency (HC) filter.afIlbd 0:1 filterByRange.afIlbd on filterLimits.afIlbd 0:1 filterLabel.afIlbd Allele Frequency (ILBD) filter.differentialRate -1:1 filterByRange.differentialRate on filterLimits.differentialRate -1:1 filterLabel.differentialRate Case-Control Differential (case - control) skipEmptyFields on track aprSv parent longReadVariants priority 15 bigDataUrl /gbdb/$D/lrSv/apr.bb shortLabel Arab APR 53 SVs longLabel Structural Variants from 53 Arab Pangenome Reference samples (UAE-resident; HiFi + ONT) 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>AC</b>: $AC/$alleleNumber<br><b>AF</b>: $alleleFreq<br><b>Samples</b>: $numSamples<br><b>Alts</b>: $numAlts filterValues.svType INS,DEL,CPX,MIXED filterType.svType multipleListOr filterLabel.svType SV Type - filter.svLen 0:99885 + filter.svLen 0:99892 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:584016 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:107 filterByRange.AC on filterLabel.AC Allele Count filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency skipEmptyFields on track cpc1Sv parent longReadVariants priority 13 bigDataUrl /gbdb/$D/lrSv/cpc1.bb shortLabel CPC 58 SVs longLabel Structural Variants from 58 Chinese Pangenome Consortium samples (CPC-only; HiFi) 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>AC</b>: $AC/$alleleNumber<br><b>AF</b>: $alleleFreq<br><b>Samples</b>: $numSamples<br><b>Alts</b>: $numAlts filterValues.svType INS,DEL,CPX,MIXED filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:8998096 filterByRange.svLen on filterLabel.svLen SV Length - filter.insLen 0:376583 + filter.insLen 0:414249 filterByRange.insLen on filterLabel.insLen Insertion Length filter.AC 0:116 filterByRange.AC on filterLabel.AC Allele Count filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency skipEmptyFields on track chirmade101Sv parent longReadVariants priority 17 bigDataUrl /gbdb/$D/lrSv/chirmade101.bb shortLabel SVatalog 101 SVs longLabel Structural Variants from 101 SVatalog samples (cystic fibrosis; Chirmade et al. 2026) 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>Genes</b>: $geneCount filterValues.svType DEL,INS,DUP,INV,CPX filterType.svType multipleListOr filterLabel.svType SV Type filter.svLen 0:1321484 filterByRange.svLen on filterLabel.svLen SV Length filter.insLen 0:31711 filterByRange.insLen on filterLabel.insLen Insertion Length filter.geneCount 0:200 filterByRange.geneCount on filterLabel.geneCount Gene Count skipEmptyFields on track cardSv parent longReadVariants priority 10 bigDataUrl /gbdb/$D/lrSv/card.bb shortLabel CARD 351 SVs longLabel Structural Variants from 351 NIH CARD brain samples (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>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 0:702 filterByRange.AC on filterLabel.AC Allele Count filter.alleleFreq 0:1 filterByRange.alleleFreq on filterLimits.alleleFreq 0:1 filterLabel.alleleFreq Allele Frequency 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)