Support single-dot genotype

bbimber · bbimber · commit 18431eab35d1 · 2024-10-17T13:29:20.000-07:00
diff --git a/jbrowse/src/client/JBrowse/Browser/plugins/ExtendedVariantPlugin/ExtendedVariantWidget/ExtendedVariantWidget.tsx b/jbrowse/src/client/JBrowse/Browser/plugins/ExtendedVariantPlugin/ExtendedVariantWidget/ExtendedVariantWidget.tsx
@@ -208,7 +208,7 @@ export default jbrowse => {
                 const gt = samples[sample]["GT"]
                 for (let genotype of gt){
                     const nc = "No Call"
-                    if (genotype === "./." || genotype === ".|."){
+                    if (genotype === "./." || genotype === ".|." || genotype === '.'){
                         gtCounts[nc] = gtCounts[nc] ? gtCounts[nc] + 1 : 1
                         gtTotal = gtTotal + 1
                     }

Original file line number	Diff line number	Diff line change
`@@ -208,7 +208,7 @@ export default jbrowse => {`
`208`	`208`	`const gt = samples[sample]["GT"]`
`209`	`209`	`for (let genotype of gt){`
`210`	`210`	`const nc = "No Call"`
`211`		`- if (genotype === "./." \|\| genotype === ".\|."){`
	`211`	`+ if (genotype === "./." \|\| genotype === ".\|." \|\| genotype === '.'){`
`212`	`212`	`gtCounts[nc] = gtCounts[nc] ? gtCounts[nc] + 1 : 1`
`213`	`213`	`gtTotal = gtTotal + 1`
`214`	`214`	`}`