Fix softmasked sequences in k-mers not being reverse complemented

EricR86 · EricR86 · commit a3228e40879b · 2024-11-28T15:37:42.000-05:00
diff --git a/newmap/unique_counts.py b/newmap/unique_counts.py
@@ -12,7 +12,7 @@
 KMER_RANGE_SEPARATOR = ":"
 SEQUENCE_ID_SEPARATOR = ","
 
-COMPLEMENT_TRANSLATE_TABLE = bytes.maketrans(b'ACGT', b'TGCA')
+COMPLEMENT_TRANSLATE_TABLE = bytes.maketrans(b'ACGTacgt', b'TGCAtgca')
 ALLOWED_BASES = b'ACGTactg'
 UNIQUE_COUNT_FILENAME_FORMAT = "{}.unique.{}"
 
