4d29f5bdc54732fe9518cf0357fb563074a1a238
kate
  Thu Sep 10 15:10:29 2020 -0700
More make doc. refs #26129

diff --git src/hg/makeDb/doc/hg19.txt src/hg/makeDb/doc/hg19.txt
index d11e4f4..d87741f 100644
--- src/hg/makeDb/doc/hg19.txt
+++ src/hg/makeDb/doc/hg19.txt
@@ -33716,15 +33716,22 @@
 hgsql hg19 -Ne "select varId,clinSign from clinvarSub" | sort -n  > clinSign.txt
 
 join -t $'\t' sort.main.bed clinSign.txt | cut -f 2- | sort -k1,1 -k2,2n -k5,5 | tawk -f gawk   | tawk -f fawk > tmp1
 tawk '{print $1":"$2 + 1"-"$3"<BR>Variants (submissions):"$11}' tmp1 > tmp2
 paste tmp1 tmp2 > bigBedInput.bed
 
 #join -t $'\t' sort.main.bed clinSign.txt   | uniq -c | sed 's/^ *//' | sed 's/ /\t/' | tawk '{print $3,$4,$5, $6, $7, $1}' | sort -k1,1 -k2,2n > sorted.bed
 # fawk written by "hand" 
 #tawk -f fawk sorted.bed > bigBedInput.bed
 bedToBigBed -as=clinsub.as -type=bed9+2 -tab bigBedInput.bed /cluster/data/hg19/chrom.sizes clinsub.bb
 ln -s `pwd`/clinsub.bb /gbdb/hg19
 
 #############################################################################
 # Trios for Genome In a Bottle - DONE 08/04/2020 ChrisL
 # see ~/kent/src/hg/makeDb/giab/make.txt
+
+#############################################################################
+# COVID GWAS from  COVID-19 Host Genetics Initiative  Sep 2020  Kate
+# see ~kent/src/hg/makeDb/doc/covid/covidHgiGwas.txt
+
+
+