feat: add inclusion of "NT" prefixed refseq accessions to hgvs tools (#…

…383)
ga4gh · Apr 5, 2024 · a8925b2 · a8925b2
1 parent 6066b4a
commit a8925b2
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Showing 2 changed files with 2 additions and 1 deletion.
diff --git a/src/ga4gh/vrs/dataproxy.py b/src/ga4gh/vrs/dataproxy.py
@@ -88,6 +88,7 @@ def extract_sequence_type(alias: str) -> str:
             "refseq:NG_": "g",
             "refseq:NC_00": "g",
             "refseq:NW_": "g",
+            "refseq:NT_": "g",
             "refseq:NR_": "n",
             "refseq:NP_": "p",
             "refseq:XM_": "c",

diff --git a/src/ga4gh/vrs/utils/hgvs_tools.py b/src/ga4gh/vrs/utils/hgvs_tools.py
@@ -210,7 +210,7 @@ def from_allele(self, vo, namespace=None):
             if ns.startswith("GRC") and namespace is None:
                 continue
 
-            if not (any(accession.startswith(pfx) for pfx in ("NM", "NP", "NC", "NG", "NR", "NW", "XM", "XR", "XP"))):
+            if not (any(accession.startswith(pfx) for pfx in ("NM", "NP", "NC", "NG", "NR", "NW", "NT", "XM", "XR", "XP"))):
                 continue
 
             sequence_type = self.data_proxy.extract_sequence_type(alias)