creating annotations

[aselewa]

Hi,

Thanks for creating this awesome tool. I am following the wiki for creating annotations (https://github.com/omerwe/polyfun/wiki/2.-Using-and-creating-functional-annotations).

I think this page is missing the fact that polyfun.py also looks for files in the form of annot..l2.M. The tutorial says we only need 22 files but we also need the .M file for each chromosome. polyfun.py will result in a FileNotFoundError if the .M file is not present.

Best,
Alan

[aselewa]

I solved the issue by summing the columns of the annotation files per chromosome. I know its an easy thing for the user to do, but I think compute_ld_score should do this for consistency with the original ldsc method.

Best,
Alan

[omerwe]

Thanks, that's a good idea! I won't get around to updating the code today, but I updated the wiki to clarify that you need to create the .l2.M files.

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