LUYAO REN
il y a 5 ans
1 fichiers modifiés avec 2 ajouts et 2 suppressions
+ 2
- 2
tasks/bedCoverage.wdl
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| @@ -35,7 +35,7 @@ task bedCoverage { | |||
| /opt/ccdg/bedtools-2.27.1/bin/bedtools coverage -a ${right_200} -b ${mie_bed} -counts | cut -f4 > ${sample_name}.${chromo}.mie.right200.coverage.txt | |||
| paste ${sample_name}.${chromo}.mie.left50.coverage.txt ${sample_name}.${chromo}.mie.left100.coverage.txt ${sample_name}.${chromo}.mie.left150.coverage.txt ${sample_name}.${chromo}.mie.left200.coverage.txt ${sample_name}.${chromo}.mie.right50.coverage.txt ${sample_name}.${chromo}.mie.right100.coverage.txt ${sample_name}.${chromo}.mie.right150.coverage.txt ${sample_name}.${chromo}.mie.right200.coverage.txt > ${sample_name}.${chromo}.mie.coverage.txt | |||
| paste ${sample_name}.${chromo}.mie.left200.coverage.txt ${sample_name}.${chromo}.mie.left150.coverage.txt ${sample_name}.${chromo}.mie.left100.coverage.txt ${sample_name}.${chromo}.mie.left50.coverage.txt ${sample_name}.${chromo}.mie.right50.coverage.txt ${sample_name}.${chromo}.mie.right100.coverage.txt ${sample_name}.${chromo}.mie.right150.coverage.txt ${sample_name}.${chromo}.mie.right200.coverage.txt > ${sample_name}.${chromo}.mie.coverage.txt | |||
| # all variants | |||
| @@ -56,7 +56,7 @@ task bedCoverage { | |||
| /opt/ccdg/bedtools-2.27.1/bin/bedtools coverage -a ${right_200} -b ${all_bed} -counts | cut -f4 > ${sample_name}.${chromo}.all.right200.coverage.txt | |||
| paste ${sample_name}.${chromo}.all.left50.coverage.txt ${sample_name}.${chromo}.all.left100.coverage.txt ${sample_name}.${chromo}.all.left150.coverage.txt ${sample_name}.${chromo}.all.left200.coverage.txt ${sample_name}.${chromo}.all.right50.coverage.txt ${sample_name}.${chromo}.all.right100.coverage.txt ${sample_name}.${chromo}.all.right150.coverage.txt ${sample_name}.${chromo}.all.right200.coverage.txt > ${sample_name}.${chromo}.all.coverage.txt | |||
| paste ${sample_name}.${chromo}.all.left200.coverage.txt ${sample_name}.${chromo}.all.left150.coverage.txt ${sample_name}.${chromo}.all.left100.coverage.txt ${sample_name}.${chromo}.all.left50.coverage.txt ${sample_name}.${chromo}.all.right50.coverage.txt ${sample_name}.${chromo}.all.right100.coverage.txt ${sample_name}.${chromo}.all.right150.coverage.txt ${sample_name}.${chromo}.all.right200.coverage.txt > ${sample_name}.${chromo}.all.coverage.txt | |||
| >>> | |||
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