Chris Fields

I was a little surprised by this result at first, primarily since we have used the older version of `methylseq` (likely from the DSL1 line) and I believe had reports...

Thanks @ewels I think doing this within a custom config that overrides the above logic to do what I need should work. I'm wondering whether this is something that could...

A small update on this. I did manage to get this running by simply using a custom conf with the following in the process block: ``` withName: BISMARK_METHYLATIONEXTRACTOR { ext.args...

I'll have a look, I'm not quite sure how extensive the changes would be if (for example) cmscore is being used internally (shame since I should know this, I wrote...

This should hopefully be addressed with some of the META changes added in the last Bioperl release (1.7.1). I'm also pushing out a new 1.7.2 release for both Bioperl and...

See #375 and pull request regarding changes to CI, specifically switching to Github Actions.

It's unlikely tests are actively being run, as they are typically performed upon a commit and Travis-CI has long gone commercial and requires a paid account. I'll close this but...

This would be great to add as I've seen spike-ins being used in a few ChIP-Seq projects. I believe the only place spike-in normalization is included is with the bigWig...

@chlazaris would it make sense to combine efforts here? It seems like there is considerable overlap, but the workflow from @nservant seems to tick a few more requests like spike-in...

@chlazaris it should be a call that involves the key nf-core devs who have been working on this, for example @JoseEspinosa or @drpatelh . Maybe this is a conversation that...