User: pierre.justeau

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Posts by pierre.justeau

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Comment: A: GNU parallel on multiple files to re-header bam files
... Hi all, Thanks a lot for your help and script, it's run perfectly. I better understand where was my mistake. I just discovered GNU parallel, I'm a bit confused with some syntaxes, i'm gonna to learn more about it. Thanks again, Pierre ...
written 9 months ago by pierre.justeau10
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Comment: A: GNU parallel on multiple files to re-header bam files
... thanks for your help. I solve the issues for my first step "#filtered". I didn't find a solution to run the step "re-header" for a multiple files... Many thanks for your help, Pierre ...
written 9 months ago by pierre.justeau10
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GNU parallel on multiple files to re-header bam files
... Hi All, The purpose of my question is to generate a new header for a bam files. For one sample, i defined two command lines and its works: #filter header samtools view -H file1.bam | awk '(/^@SQ/ && /chrM/) || (!/^@SQ/) {print $0} ' > file1_filtered.txt #re-header cat f ...
gnu parallel written 9 months ago by pierre.justeau10

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