variantgrid_private#3491 - support reference variants

SACGF · Aug 14, 2023 · 79d8e27 · 79d8e27
1 parent 07701c4
commit 79d8e27
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/genes/hgvs/biocommons_hgvs/hgvs_converter_biocommons.py b/genes/hgvs/biocommons_hgvs/hgvs_converter_biocommons.py
@@ -127,6 +127,8 @@ def hgvs_to_variant_coords_and_reference_match(self, hgvs_string: str, transcrip
         var_g = self._hgvs_to_g_hgvs(hgvs_string)
         try:
             (chrom, position, ref, alt, typ) = self.babelfish.hgvs_to_vcf(var_g)
+            if alt == '.':
+                alt = ref
         except HGVSDataNotAvailableError:
             raise Contig.ContigNotInBuildError()
         matches_reference = self.get_hgvs_match_ref_allele(hgvs_string, var_g, ref, alt)