chaopower
/
pipeline
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

bug

master
chaopower 2024-01-10 10:55:36 +08:00
parent def064acf4
commit 94b41eb45c
1 changed files with 1 additions and 1 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
wdl/call_mutation.wdl
View File

@ -267,7 +267,7 @@ task mutation_calling_tissue_control {
vcf_add_tag_msi.pl ${output_dir}/mutation/${name}.raw.snp_indel.vcf ${output_dir}/mutation/${name}.raw.addtagmsi.snp_indel.vcf ${probe} t
vcf_filter.py -i ${output_dir}/mutation/${name}.raw.addtagmsi.snp_indel.vcf \
-o ${output_dir}/mutation/${name}.snp_indel.somatic.vcf
-o ${output_dir}/mutation/${name}.snp_indel.somatic.vcf \
-e 'INFO/STATUS="StrongSomatic" | ( INFO/STATUS="LikelySomatic" && FORMAT/AF[0] > 3*FORMAT/AF[1] )'
vcf_filter.py -i ${output_dir}/mutation/${name}.raw.snp_indel.vcf \