updated docs

jonas-fuchs · Oct 26, 2023 · 59a9869 · 59a9869
1 parent b7d2bd2
commit 59a9869
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 1 deletion.
diff --git a/README.md b/README.md
@@ -69,6 +69,8 @@ options:
   -t 0, --threshold 0   display frequencies above this threshold (0-1)
   --delete, --no-delete
                         delete mutations that are present in all samples and their maximum frequency divergence is smaller than 0.5 (default: True)
+  -n None, --delete-n None
+                        do not show mutations that occur n times or less (default: Do not delete)                      
   --sort, --no-sort     sort sample names alphanumerically (default: False)
   --min-cov 20          display mutations covered at least x time (only if per base cov tsv files are provided)
   -v, --version         show program's version number and exit

diff --git a/virheat/command.py b/virheat/command.py
@@ -78,7 +78,7 @@ def get_args(sysargs):
         type=int,
         metavar='None',
         default=None,
-        help="do not show mutations that occur n times or less"
+        help="do not show mutations that occur n times or less (default: Do not delete)"
     )
     parser.add_argument(
         "--sort",