a16a2e7942c15da92cb03dbe35770bf76f3f5fee
kate
  Fri Dec 11 09:32:54 2020 -0800
First cut COVID GWAS Oct. 2020 data release. refs #26616

diff --git src/hg/makeDb/trackDb/human/covidHgiGwas.ra src/hg/makeDb/trackDb/human/covidHgiGwas.ra
index 5841af3..a189627 100644
--- src/hg/makeDb/trackDb/human/covidHgiGwas.ra
+++ src/hg/makeDb/trackDb/human/covidHgiGwas.ra
@@ -1,76 +1,119 @@
+track covidHgiGwasR4Pval
+release alpha
+shortLabel COVID GWAS Pval
+longLabel GWAS meta-analyses (by Pvalue) Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative
+compositeTrack on
+group covid
+visibility hide
+autoScale on
+maxHeightPixels 48:75:128
+pennantIcon New red
+type bigLolly 9 +
+lollyField 13
+mouseOver $name $ref/$alt effect $effectSize pval $pValue studies $sourceCount
+maxItems 500000
+viewLimits 0:10
+filter.sourceCount 1
+filterLabel.sourceCount Minimum number of studies
+filter.pValueLog 3
+filter.effectSize -1.6:2.2
+filterLimits.effectSize -1.6:2.2
+filterLabel.effectSize Effect size range
+filterByRange.effectSize on
+filter._effectSizeAbs 0
+filterLabel._effectSizeAbs Minimum effect size +-
+noScoreFilter on
+bedNameLabel SNP
+chromosomes chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22
+
+    track covidHgiGwasR4PvalC2
+    parent covidHgiGwasR4Pval on
+    shortLabel COVID GWAS R4 Pval
+    longLabel COVID GWAS Pvalue Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative (17965 cases, 33 studies)
+    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4C2.$D.EC.bb
+
+    track covidHgiGwasR4PvalB2
+    parent covidHgiGwasR4Pval off
+    shortLabel Hosp COVID GWAS R4 Pval
+    longLabel Hospitalized COVID GWAS Pvalue Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative (7885 cases, 21 studies)
+    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4B2.$D.EC.bb
+
 track covidHgiGwasR4
+release alpha
 shortLabel COVID GWAS R4
-longLabel GWAS meta-analyses Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative
+longLabel GWAS meta-analyses (by Effect size) Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative
 compositeTrack on
 group covid
 visibility hide
 autoScale on
 maxHeightPixels 48:75:128
 pennantIcon New red
 type bigLolly 9 +
 lollyField 21
 mouseOver $name $ref/$alt effect $effectSize pval $pValue studies $sourceCount
 maxItems 500000
 filter.sourceCount 1
 filterLabel.sourceCount Minimum number of studies
 filter.pValueLog 3
+viewLimits 0:2.2
 filter.effectSize -1.6:2.2
 filterLimits.effectSize -1.6:2.2
 filterLabel.effectSize Effect size range
 filterByRange.effectSize on
 filter._effectSizeAbs 0
 filterLabel._effectSizeAbs Minimum effect size +-
 noScoreFilter on
 bedNameLabel SNP
 chromosomes chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22
 
     track covidHgiGwasR4C2
     parent covidHgiGwasR4 on
     shortLabel COVID GWAS R4
     longLabel COVID GWAS Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative (17965 cases, 33 studies)
     bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4C2.$D.bb
 
     track covidHgiGwasR4B2
     parent covidHgiGwasR4 off
     shortLabel Hosp COVID GWAS R4
     longLabel Hospitalized COVID GWAS Release 4 (Oct 2020) from the COVID-19 Host Genetics Initiative (7885 cases, 21 studies)
     bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4B2.$D.bb
 
 
 track covidHgiGwas
 shortLabel COVID-19 GWAS
 longLabel GWAS meta-analyses from the COVID-19 Host Genetics Initiative
 compositeTrack on
 group covid
 visibility hide
 autoScale on
 maxHeightPixels 48:75:128
 type bigLolly 9 +
 lollyField 21
 mouseOver $name $ref/$alt effect $effectSize pval $pValue studies $sourceCount
 maxItems 500000
 filter.sourceCount 1
 filterLabel.sourceCount Minimum number of studies
 filter.pValueLog 3
+viewLimits -13:21
 filter.effectSize -13:21
 filterLimits.effectSize -13:21
 filterLabel.effectSize Effect size range
 filterByRange.effectSize on
 filter._effectSizeAbs 0
 filterLabel._effectSizeAbs Minimum effect size +-
 noScoreFilter on
 bedNameLabel SNP
 chromosomes chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22
 
     track covidHgiGwasC2
     parent covidHgiGwas on
     shortLabel COVID GWAS
     longLabel COVID GWAS from the COVID-19 Host Genetics Initiative (6696 cases, 18 studies)
     bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasC2.$D.bb
 
     track covidHgiGwasB2
     parent covidHgiGwas off
     shortLabel Hosp COVID GWAS
     longLabel Hospitalized COVID GWAS from the COVID-19 Host Genetics Initiative (3199 cases, 8 studies)
     bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasB2.$D.bb