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Published 20 hours ago • verified publisher icon exomiser

Create Nextflow Exomiser

Open iimpulse opened this issue 1 year ago • 5 comments

For our specific project at the lab we implemented exomiser into a nextflow workflow along with others. Its time now to elevate exomiser to its own workflow and publish it on nf-core if possible. Please assign me this issue so I may track it.

iimpulse avatar Sep 01 '23 03:09 iimpulse

This would be great to have. Are you using the newer docker images with a user shell to run this?

julesjacobsen avatar Sep 01 '23 07:09 julesjacobsen

At the time we implemented it we used exomiser-cli-13.1.0 distribution and built our own container! I'll take a look at this in the coming weeks and see what I find

iimpulse avatar Sep 01 '23 15:09 iimpulse

https://hub.docker.com/r/exomiser/exomiser-cli/tags you'll want to use the latest tagged with the '-bash' suffix

julesjacobsen avatar Sep 06 '23 10:09 julesjacobsen

There's already work being done here https://github.com/nf-core/modules/pull/3792

matthdsm avatar Sep 13 '23 10:09 matthdsm

@julesjacobsen could you elaborate and/or point me to the docs about how we best use the provided docker container?

matthdsm avatar Sep 13 '23 10:09 matthdsm