preprocess of the nanopore seqeucning data

Question

[boymin2020]

Hi all,

Recently, I have been debugging my pipeline for nanopore sequencing data. The input data provided from my cooperators is hundreds of fastq files. Should I concentrate them to one file with the "cat" shell command for the downstream analysis?

Thanks,

Answer 1

[WouterDeCoster]

We obviously don't know your pipeline, but indeed you can just concatenate the fastq files (or fastq.gz files) to a single file with cat.

[boymin2020]

Thank you for your reply. As this is the first step in my pipeline, I think there was no need to post the details here.