From 247258ce4a64de3793096e5a30be354d596f95ee Mon Sep 17 00:00:00 2001 From: liqingtian Date: Tue, 26 Jul 2016 10:49:13 -0400 Subject: [PATCH] Modify default parameters --- src/filter.cpp | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/src/filter.cpp b/src/filter.cpp index 396fb53..aa89177 100644 --- a/src/filter.cpp +++ b/src/filter.cpp @@ -12,7 +12,7 @@ int main_filter(int argc,char *argv[]) { int c; int depthcutoff = 20; - int GQcutoff = 50; + int GQcutoff = 100; string type, ifile, ofile; while ((c = getopt(argc, argv, "i:d:q:t:o:")) >= 0) { @@ -40,8 +40,8 @@ int main_filter(int argc,char *argv[]) <<" hetero_nonAS: heterozygous SNV with non allele-specific binding\n" <<"Options:\n" <<" [-d depthCutoff] Keep the SNVs with read depth >= depthCutoff (Default:20). Must be a positive integer\n" - <<" [-q GQCutoff] Genotype quality cutoff. (Recommend: 50 for heterozygous SNVs and 10 for\n" - <<" homozygous SNVs. Default: 50) Must be a positive integer.\n"; + <<" [-q GQCutoff] Genotype quality cutoff. (Recommend: 100 for heterozygous SNVs and 10 for\n" + <<" homozygous SNVs. Default: 100) Must be a positive integer.\n"; return 1; } string sbuf,INFO,s1,s2,s3,s4,s5,s6,s7,s8,s9;