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add preseq to nf-core/seqinspector #27

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FranBonath opened this issue Oct 21, 2024 · 1 comment
Open

add preseq to nf-core/seqinspector #27

FranBonath opened this issue Oct 21, 2024 · 1 comment
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@FranBonath FranBonath converted this from a draft issue Oct 21, 2024
@syyang93 syyang93 assigned syyang93 and unassigned syyang93 Oct 28, 2024
@ctuni ctuni self-assigned this Oct 29, 2024
@ctuni ctuni moved this from suggested modules to add to In Progress in seqinspector project board Oct 29, 2024
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ctuni commented Oct 29, 2024

I would like to start with this issue but preseq modules such as ccurve or lcextrap use BAM files as input; what should the strategy be to include this? Should the pipeline accept a sample sheet of BAM files instead of FASTQ files? And depending on the type of samplesheet follow a differential flow: FASTQ as input: fastqc, multiqc, etc || BAM as input: preseq, multiqc, etc?

@ctuni ctuni moved this to Todo in Hackathon October 2024 Oct 29, 2024
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Hackathon October 2024
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