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Merge technical replicates (SRR1 + SRR2 -> SRX) #270

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millerh1 opened this issue Feb 6, 2024 · 0 comments
Open

Merge technical replicates (SRR1 + SRR2 -> SRX) #270

millerh1 opened this issue Feb 6, 2024 · 0 comments
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enhancement Improvement for existing functionality

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@millerh1
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millerh1 commented Feb 6, 2024

Description of feature

The feature I'm hoping for is merging of technical replicates / runs (SRRs) within each sample/experiment (SRX/GSM/etc). I would like the fastq files to be concatenated within each index (SRR1.R1.fq + SRR2.R1.fq -> SRX.R1.fq; SRR1.R2.fq + SRR2.R2.fq -> SRX.R2.fq). Is such a feature possible in the current pipeline? This would be really nice for those who wish to go directly from fetchngs to other nf-core pipelines.

The docs suggest this should be possible (link), but it doesn't seem to be implemented yet.

@millerh1 millerh1 added the enhancement Improvement for existing functionality label Feb 6, 2024
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