new meta-omics pipeline map PR for the website: github.com/nf-core/website/pull/4348 Care to have a look? Added seqsubmit, compressed size, removed old unused ones

Do people understand what is “data upload”? maybe data sharing or upload to public archive? seqsubmit can also upload reads.. so even amplicon .. and assemblies generated from mag (or maybe somewhere else). It might sound complicated but it should be not hard to integrate into mag (I haven’t checked other pipelines) just creating 2 samplesheets (for assemblies and mags)

I agree, but if people dont want to add downstream samplesheet generators in their pipeline, then simple manual converters that we present here: github.com/vagkaratzas/meta-omics-sig/…/converters will do it.

Should seqsubmit do the ingestion of other nf-core pipelines instead? We could have a python package that takes mag results and generates the samplesheet + dataharmonizer to handle the metadata (which is usually what takes the longest)

will add this python converter to the /converters/ of this project for sure, as with all other converters..now regarding which pipelines output seqsubmit can upload, youknow better than I do 😛