Correcting default values for min options--they are now 0.2, not 1.0

nhansen · May 18, 2021 · 0214039 · 0214039
1 parent 00ef482
commit 0214039
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/docs/svbenchmark.rst b/docs/svbenchmark.rst
@@ -24,9 +24,9 @@ Options
 **--test**                        A VCF-formatted file of structural variants to test (required).
 **--truth**                       A VCF-formatted file of variants to compare against (required).
 **--maxdist**                     Disallow matches if positions of two variants are more than maxdist bases from each other (default 100,000).
-**--normshift**                   Disallow matches if alignments between alternate alleles have normalized shift greater than normshift (default 1.0)
-**--normsizediff**                Disallow matches if alternate alleles have normalized size difference greater than normsizediff (default 1.0)
-**--normdist**                    Disallow matches if alternate alleles have normalized edit distance greater than normdist (default 1.0)
+**--normshift**                   Disallow matches if alignments between alternate alleles have normalized shift greater than normshift (default 0.2)
+**--normsizediff**                Disallow matches if alternate alleles have normalized size difference greater than normsizediff (default 0.2)
+**--normdist**                    Disallow matches if alternate alleles have normalized edit distance greater than normdist (default 0.2)
 **--minsize**                     Only include true variants of size >= minsize for recall calculation and test variants >= minsize for precision calculation (default 0)
 **--prefix**                      Prefix for output file names (default: "benchmark")
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