LUYAO REN
5 years ago
1 changed files with 2 additions and 2 deletions
+ 2
- 2
tasks/MIEpos2bed.wdl
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| @@ -10,9 +10,9 @@ task MIEpos2bed { | |||
| python /opt/vcf2bed.py ${mie_file} ${sample_name}.${chromo}.info.txt | |||
| cat ${mie_file} | awk '{ if ($3 == 0) { print } }' | cut -f1,8,9 > ${sample_name}.${chromo}.allvariants.bed | |||
| cat ${sample_name}.${chromo}.info.txt | grep -v '0:4:4' | grep -v '1:4:4' | awk '{ if ($3 != 0) { print } }' | cut -f1,8,9 > ${sample_name}.${chromo}.allvariants.bed | |||
| cat ${mie_file} | awk '{ if ($3 == 0) { print } }' | grep 'MIE' | cut -f1,8,9 > ${sample_name}.${chromo}.mie.bed | |||
| cat ${sample_name}.${chromo}.info.txt | grep -v '0:4:4' | grep -v '1:4:4' | awk '{ if ($3 != 0) { print } }' | grep 'MIE' | cut -f1,8,9 > ${sample_name}.${chromo}.mie.bed | |||
| >>> | |||
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