Dan Jones

Adding fungal HMM

4

Hi Torsten. We met a few times during my time at La Trobe a few years back. I'm now at [Plant and Food Research](https://www.plantandfood.co.nz/). We are interested in an open-source...

Unclear description of output files for alignment and quantification step

4

## Request for unambiguous description of the most important output files First, apologies and feel free to close this issue if this has been addressed in `nf-core/rnaseq/3.4`. When running `nf-core/rnaseq/3.0`,...

Approved pipelines fail using test data using `test,docker`

3

A number of "Approved" pipelines in `nf-core/pipelines` fail. These are pipelines run using Nextflow 24.10.5 using the following: ``` nextflow run nf-core/ -r -profile test,docker --outdir test ``` The "Approved"...

DSL1 > DSL2 migration

6

A number of "Approved" pipelines in `nf-core/pipelines` can only run using Nextflow 22.10.x: ``` Nextflow DSL1 is no longer supported — Update your script to DSL2, or use Nextflow 22.10.x...