A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

<@U08FMEMFA86> like my converters here? :stuck_out_tongue: <https://github.com/vagkaratzas/meta-omics-sig/tree/main/scripts/converters|github.com/vagkaratzas/meta-omics-sig/…/converters>

<https://vagkaratzas.github.io/meta-omics-sig/|vagkaratzas.github.io/meta-omics-sig> evolving with the runs..metatdenovo (198252 proteins) and proteinfamilies (405 families) executed for the pilot LMO study

Nice! Now drop them into a module and they are ready for nf-meta :sunglasses:

Or write them as small .nf scripts with channel logic to be ready for what the new Nextflow language update might bring:v:

Either way, curious to see how many different connectors you actually need, or if they can be reduced to a select few generic ones in the end.
I tried to already go there in our examples e.g. with this "samplesheet-ops" adapter / connector:
<https://github.com/bmds-tue/samplesheet-ops|github.com/bmds-tue/samplesheet-ops>

Doing the same more or less, one adaptor for each pipeline for now, and tweaking its output with flags depending on which pipeline it will send the samplesheet for. 

The plan is to finish the pilot run on manual mode to figure the connectors, and then have another dataset use-case to readily run nf-meta for the paper

Love the idea of one samplesheets ops nfcore module!