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Illumina / Nirvana

The nimble & robust variant annotator
https://illumina.github.io/NirvanaDocumentation/
GNU General Public License v3.0
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[Feature Request] Docker image for latest NIRVANA version #84

Closed LeeTL1220 closed 2 years ago

LeeTL1220 commented 2 years ago

Can you create a docker image and tag (in dockerhub) for the latest version of NIRVANA?

LeeTL1220 commented 2 years ago

(With the latest datasources, esp. gnomAD 3.x)

rajatshuvro commented 2 years ago

Given the large volume of data needed to run Nirvana (about 20GB), creating a performant docker image is not feasible. Therefore, we have chosen not to publish docker images for Nirvana.

LeeTL1220 commented 1 year ago

Huh? The docker image for NIRVANA should not include datasources -- those get mounted externally. The image for 3.14 didn't include the datasources and it was quite performant. Why would 3.18 be any different?

I just meant that the Downloader in the docker image should download the latest version of the datasources.

@rajatshuvro

LeeTL1220 commented 1 year ago

(Not to beat a dead horse but...)

To give you an idea of scale, we used NIRVANA 3.14 in a docker image (that you provided) to annotate >700M variants for our 98k sample 30x WGS joint callset. NIRVANA was performant.

https://www.researchallofus.org/

LeeTL1220 commented 1 year ago

@RoriCremer FYI