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Commit 6b977d69 authored by Sander Bollen's avatar Sander Bollen
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fixed mapped basenum

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......@@ -330,7 +330,7 @@ rule mapped_basenum:
output:
num=out_path("{sample}/bams/{sample}.mapped.basenum")
conda: "envs/samtools.yml"
shell: "samtools view -F 4 {input.bam} | wc -c > {output.num}"
shell: "samtools view -F 4 {input.bam} | cut -f10 | wc -c > {output.num}"
rule unique_num:
......
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