Inputting epigenomic data

[bschilder]

Hey @alexandruioanvoda, do you have plans to extend gwascelltyper to take in epigenomic data? In combination with methods like LDSC, this would obviate the need for the gene mapping step. Instead, you could derive basepair-resolution
cell-type-specific scores from bigwig or peak files.
@NathanSkene

[alexandruioanvoda]

Hi @bschilder ! Yes, I have some scripts that wrap LDSC on ATAC-seq/BED-files and results looked good but it's a matter of code refactoring for it to be a nice function in gwascelltyper.

I'm currently in thesis-writing mode, so package development may be significantly slower for the next 1-2 months (submission deadline soon), but afterwards am happy to refactor that code and push to the package! Thanks for the suggestion, looking forward to collaborating on this stuff and others!