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what is $PU? #21

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kdaily opened this issue Mar 28, 2019 · 2 comments
Open

what is $PU? #21

kdaily opened this issue Mar 28, 2019 · 2 comments
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kdaily commented Mar 28, 2019

https://github.com/bsmn/bsmn-pipeline/blob/master/genome_mapping/job_scripts/aln_1.align_sort.sh#L13
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kdaily commented Mar 28, 2019

I think it's 'platform unit'. Is it from the fastq header composed of the {FLOWCELL_BARCODE}.{LANE}.{SAMPLE_BARCODE}?

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bintriz commented Apr 30, 2019

You're right. It stands "platform unit" and is extracted from each read name in the fastq while running genome_mapping/job_scripts/pre_2.split_fastq_by_RG.sh. The format here I'm using is "FCX"_L"LN".

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