Allow --dup-to-ins for collapse

ACEnglish · Jan 23, 2025 · 84a114d · 84a114d
1 parent 2920771
commit 84a114d
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/truvari/collapse.py b/truvari/collapse.py
@@ -515,6 +515,9 @@ def parse_args(args):
                         help="Maximum size of variant to attempt to sequence resolve ($(default)s)")
     thresg.add_argument("-D", "--decompose", action="store_true",
                         help="Allow decomposition for SV to BND comparison (%(default)s)")
+    thresg.add_argument("-d", "--dup-to-ins", action="store_true",
+                        help="Assume DUP svtypes are INS (%(default)s)")
+
 
     parser.add_argument("--hap", action="store_true", default=False,
                         help="Collapsing a single individual's haplotype resolved calls (%(default)s)")