fix(browser): use joint data in variant page ancestry table

broadinstitute · May 8, 2024 · 735afb5 · 735afb5
1 parent c24d30a
commit 735afb5
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Showing 2 changed files with 16 additions and 3 deletions.
diff --git a/browser/src/VariantPage/GnomadPopulationsTable.tsx b/browser/src/VariantPage/GnomadPopulationsTable.tsx
@@ -74,6 +74,7 @@ type OwnGnomadPopulationsTableProps = {
   datasetId: DatasetId
   exomePopulations: Population[]
   genomePopulations: Population[]
+  jointPopulations: Population[] | null
   showHemizygotes?: boolean
   showHomozygotes?: boolean
 }
@@ -102,14 +103,24 @@ export class GnomadPopulationsTable extends Component<
   }
 
   render() {
-    const { datasetId, exomePopulations, genomePopulations, showHemizygotes, showHomozygotes } =
-      this.props
+    const {
+      datasetId,
+      exomePopulations,
+      genomePopulations,
+      jointPopulations,
+      showHemizygotes,
+      showHomozygotes,
+    } = this.props
     const { includeExomes, includeGenomes } = this.state
 
     const mergedPopulations = mergeExomeGenomeAndJointPopulationData({
       exomePopulations: includeExomes ? exomePopulations : [],
       genomePopulations: includeGenomes ? genomePopulations : [],
-    })
+      jointPopulations,
+      // @ts-expect-error: silence TS's warning -- there is no legitimate "" id in
+      //   PopulationId, but the source array from joint population has a summary value
+      //   with an id of "", filter it out here to display the correct values
+    }).filter((mergedAncestry) => mergedAncestry.id !== '')
 
     const mergedPopulationsWithNames = addPopulationNames(mergedPopulations)
     const mergedNestedPopulationsWithNames = nestPopulations(mergedPopulationsWithNames)

diff --git a/browser/src/VariantPage/VariantPopulationFrequencies.tsx b/browser/src/VariantPage/VariantPopulationFrequencies.tsx
@@ -53,6 +53,7 @@ const VariantPopulationFrequencies = ({ datasetId, variant }: Props) => {
                   datasetId={datasetId}
                   exomePopulations={exomePopulations}
                   genomePopulations={genomePopulations}
+                  jointPopulations={variant.joint ? variant.joint.populations : null}
                   showHemizygotes={variant.chrom === 'X' || variant.chrom === 'Y'}
                 />
               </TableWrapper>
@@ -143,6 +144,7 @@ const VariantPopulationFrequencies = ({ datasetId, variant }: Props) => {
         datasetId={datasetId}
         exomePopulations={variant.exome ? variant.exome.populations : []}
         genomePopulations={variant.genome ? variant.genome.populations : []}
+        jointPopulations={variant.joint ? variant.joint.populations : null}
         showHemizygotes={variant.chrom === 'X' || variant.chrom === 'Y'}
       />
     </TableWrapper>