Simon Pearce

@fmalmeida , we are going to be making a change to the modules syntax soon, which will involve updating all the modules. Can we try and get this merged before...

@nf-core-bot fix linting

Is this likely to happen at any point? I have the UMIs present in a tag, as required by fgbio, and would like to compare. Or is there an easy...

I would also be very interested in this, my data has slightly different template lengths, so I would like to make consensus reads with respect to just the UMI and...

@nf-core-bot fix linting

Don't worry too much about rounding differences in the output files, that is a common issue. You can just check for a string inside the file instead, or failing that...

I have no qualms about you using optparse or not personally, I definitely agree that it is much easier to use predefined containers! Although I struggle writing anything in base-R...

> > Does this shrink the log2FC values automatically? I can't see it. > > I'm pretty sure it happens in `DESeq2()` for calculating the p values etc, but I...

@nf-core-bot fix linting

> @nf-core/core, the CI tests keep failing due to GHA being unable to fetch one file or another from the test-data repo. I'm having the same issues when testing locally....