add PycoQC instead of FASTQC or MinIONQC?

[enovoa]

Hello, we are using Fastqc (or Falco which is a less-demanding version) for quality control in mop_preprocess, but this tool was built for illumina. Most of its reports are not useful for nanopore. For example, the read length distribution plots use a range which is not useful for some runs that we are doing.

I think we are also using MinIONQC in MoP3, but doesn't solve this problem. It might be worth considering to swap to something developed later in time, more tailored for nanopore data QC analysis: https://github.com/a-slide/pycoQC

Thanks!

[lucacozzuto]

I see that can also be embeeded in final multiQC report:

MultiQC/MultiQC#1075

So, no reason for not adding it :)

👍