Gregor Sturm
Gregor Sturm
> This file will always be there, in the pipeline github. Whereas the contrast file is data specific. Just to clarify again, this will *only* be in the pipeline and...
No, it's all good then. All I wanted to know is that in a standard pipeline run, the user wouldn't be required to specify yet another config file. As you...
@suzannejin, could you please provide a summary where we stand since the last PR has been merged and what are the next steps? @atrigila mentioned that the toolsheet is currently...
It's debatable if we want to support the combination of `formula` + `comparison`. I think I once argued *for* it, but it could be non-trivial to translate a comparison-tuple into...
Just left a comment in https://github.com/nf-core/differentialabundance/issues/451#issuecomment-2834065665 and I think it's related. It could make things easier if formula and blocking_factor were mutually exclusive.
> So @grst , we'd end up with, either: > > * You supply everything manually- formula, contrast_string > * OR you stay old-school and supply variable, ref, target, blocking...
I guess this can be closed. Please reopen otherwise.
> Do you think from a user point of view it would be easier to provide each parameter in a separate column than all of them in the same columns?...
related discussion for adding `cellranger multi`: https://github.com/nf-core/scrnaseq/issues/174 The `cellranger multi` module on `nf-core/modules` has been merged: https://github.com/nf-core/modules/pull/3229
No, this still needs to be implemented here. I was just linking the issues for reference.