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lifebit-ai / gwas

GWAS pipeline using SAIGE
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Allow user to input LD scores files for LDSC #64

Closed mcamarad closed 4 years ago

mcamarad commented 4 years ago

This file is 1million lines and git will cry if we have it under version control.

https://user-images.githubusercontent.com/38183826/96674672-352f9b80-1361-11eb-96d0-3eeb6cd84a2b.png

Reminder that this cp /assets/* assets/would only work if we had the assets folder inside the container, rn we don't which is a right approach.

We should expose this to the user in case we want to change it in the future and set it as an s3 resource by default via a param default value.

I uploaded it here:

s3://lifebit-featured-datasets/projects/gel/gel-gwas/assets/w_hm3.snplist

Note: You can check if the file is the same, is ok etc by copying from s3 locally and inspecting with:

aws s3 cp  s3://lifebit-featured-datasets/projects/gel/gel-gwas/assets/ .