Hi everyone, I'm pleased to announce that we have a first version of the variant prioritization pipeline ( https://github.com/nfdata-omics/nf_pgcr_dev ) . We worked to build the new pipeline from the latest nf-core template. We updated the CNV subworkflow to adhere with the ne PCGR requirement to integrate allelic imbalance data from ASCAT. This pipeline was already tested on some of our internal projects and we didn't find any major issue. Currently we are working to integrate also the CPGR ( https://github.com/nfdata-omics/nf_pgcr_dev/issues/15) to the main workflow, but we think that we are ready to share what has been done. Please feel free to test the pipeline and open issues when needed 🙂

Very nice!!! Maybe we can work on getting it moved to nf-core so that more people can start contributing?

Hi Famke, I agree with you as that was the original plan. Can you support us with it? @Maxime Garcia @James Fellows Yates

No problem

I just added you 😄

Sorry, clicked on the wrong button and declined the invite

don't worry, stuff happens 😉 I've just resend it

I'm in

I guess it should be varprio (stands for variant prioritization)

@Famke Bäuerle @Rike Hanssen is that ok for you?

what did we agree on in the proposal? whats wrong with

variantprioritization

?

(BTW I don't have any preference for the name variantprioritization is fine with me, so I’ll stick with your preferences)

We have https://github.com/nf-core/variantprioritization