94620e7efbee2646581236c92eed7984b61730ce
chmalee
  Wed Sep 30 08:11:14 2020 -0700
Changing colors of gnomad structural variants after feedback from Ana

diff --git src/hg/makeDb/gnomad/gnomadSvToUcsc.awk src/hg/makeDb/gnomad/gnomadSvToUcsc.awk
index 5a405f3..2b6bf0a 100755
--- src/hg/makeDb/gnomad/gnomadSvToUcsc.awk
+++ src/hg/makeDb/gnomad/gnomadSvToUcsc.awk
@@ -70,45 +70,45 @@
 
 split($20,afArray,",")
 for (i = 1; i < length(afArray) - 1; i++)
     {
     af = af "" sprintf("%0.2g, ", afArray[i])
     }
 af = af "" sprintf("%0.2g", afArray[length(afArray)])
 
 split($4,a,"_")
 name=a[3] "_" a[4] "_" a[5]
 mouseOver = "Gene(s) affected: " geneListStr ", Position: " chrom ":" start+1 "-" end ", Size: " svlen ", Class: " svtype ", Allele Count: " ac ", Allele Number: " an ", Allele Frequency: " af
 
 color=""
 switch(svtype) {
     case "BND":
-        color = "154,182,160"
+        color = "128,128,128"
         break
     case "CPX":
-        color = "182,239,195"
+        color = "0,179,179"
         break
     case "CTX":
-        color = "154,182,160"
+        color = "0,179,179"
         break
     case "DEL":
-        color = "231,154,144"
+        color = "0,0,255"
         break
     case "DUP":
-        color = "143,184,214"
+        color = "255,0,0"
         break
     case "INS":
-        color = "231,183,237"
+        color = "255,165,0"
         break
     case "INV":
-        color = "250,199,140"
+        color = "192,0,192"
         break
     case "MCNV":
-        color = "183,170,214"
+        color = "0,179,179"
         break
     default:
         color = "154,182,160"
         break
 }
 
 print chrom, start, end, name, 0, ".", start, end, color, svlen, svtype, ac, an, af, nhet, nhomalt, PROTEIN_CODING__COPY_GAIN, PROTEIN_CODING__DUP_LOF, PROTEIN_CODING__DUP_PARTIAL, PROTEIN_CODING__INTERGENIC, PROTEIN_CODING__INTRONIC, PROTEIN_CODING__INV_SPAN, PROTEIN_CODING__LOF, PROTEIN_CODING__MSV_EXON_OVR, PROTEIN_CODING__NEAREST_TSS, PROTEIN_CODING__PROMOTER, PROTEIN_CODING__UTR, mouseOver
 }