A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

Hey hey,
is there a module in nf-core that reports on N-stretches in a given genome (FASTA)? I.e. a histogram and/or BED file of genomic locations?
It's not a big deal to script this but I though maybe this already exists...

BBDuk can of course do that, <https://nf-co.re/modules/bbmap_bbduk/|but looking at the module> it seems nobody considered that the tool supports FASTA input as well when writing it :grimacing:

Other than that, just <https://nf-co.re/modules/|search the modules> for the keyword `kmer(s)`.  I have not heard of most, but based on their description there should be multiple that are suited for that application (possibly better than BBDuk).