#3482 updated search to handle C_ for variants NC_ (#882)

* #3482 updated search to handle C_ for variants NC_

* #3482 Fix User search for NC_ NR_ and NM_

genes/hgvs/hgvs_matcher.py

@@ -511,8 +511,8 @@ def clean_hgvs(self, hgvs_string) -> Tuple[str, List[str]]:
         cleaned_hgvs = clean_string(hgvs_string)  # remove non-printable characters
         cleaned_hgvs = cleaned_hgvs.replace(" ", "")  # No whitespace in HGVS
         cleaned_hgvs = cleaned_hgvs.replace("::", ":")  # Fix double colon
-        if cleaned_hgvs[0:2].upper() == "M_":
-            cleaned_hgvs = "NM_" + cleaned_hgvs[2:]
+        if cleaned_hgvs[0:2].upper() in ("M_", "C_", "R_"):
+            cleaned_hgvs = "N" + cleaned_hgvs
         # Lowercase mutation types, e.g. NM_032638:c.1126_1133DUP - won't matter if also changes gene name as that's
         # case-insensitive
         MUTATION_TYPES = ["ins", "del", "dup", "inv"]  # Will also handle delins and del...ins

genes/tests/test_clean_hgvs.py

@@ -17,6 +17,11 @@ def test_clean_hgvs(self):
             ("nm_206933.3(USH2A):c.4298G>A", "NM_206933.3(USH2A):c.4298G>A"),
             ("m_206933.3(USH2A)::c.4298G>A", "NM_206933.3(USH2A):c.4298G>A"),
             ("m_206933.3(USH2A):c.4298G>A", "NM_206933.3(USH2A):c.4298G>A"),
+            ("c_000007.13:g.117199563G>T", "NC_000007.13:g.117199563G>T"),
+            ("c_000007.13::g.117199563G>T", "NC_000007.13:g.117199563G>T"),
+            ("nc_000007.13:g.117199563G>T", "NC_000007.13:g.117199563G>T"),
+            ("R_001566.1(TERC):n.427_428insC", "NR_001566.1(TERC):n.427_428insC"),
+            ("r_001566.1(TERC)::n.427_428insC", "NR_001566.1(TERC):n.427_428insC"),
         ]
 
         for input_hgvs, expected_result in test_cases: