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Clinical-Genomics / cg

Glue between Clinical Genomics apps
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Add CLI to create validation cases #3533

Open fevac opened 3 months ago

fevac commented 3 months ago

As a bioinformatician, I want to be able to create validation cases in a straight forward and standarised manner, So that our validation cases are consistent and easy to generate.

Note: I could not find any issue related to this https://github.com/Clinical-Genomics/cg/pull/3148 but there's some additional information added there.

Note 2: not sure what was the original acceptance criteria of the PR but something to take into account is that validation cases are usually downsampled cases, so this should be done in a way that does not to overlap with the downsample CLI too much, or perharps build on top of it and extend functionality.

Clarification

There already is a PR for this (https://github.com/Clinical-Genomics/cg/pull/3148). The steps that the PR performs is currently being performed manually by dev-bioinformaticians.

diitaz93 commented 2 months ago

@ChrOertlin is on it

ChrOertlin commented 3 weeks ago

Closed the associated PR, I think we need to discuss the creation of cases and associated cases more before