RELI for hg38 data

[yancylo]

Hi I wonder if your group would consider releasing ChIP-seq and SNPtables in hg38 coordinates? Many recently available GWAS/ ChIP-seq data are of build 38, it would be great if RELI can support the analyses of those. Thanks!

[ernstki]

Hi, @yancylo, thanks for asking. To my knowledge we've no plans for that at the moment, as we don't use this version of RELI anymore internally. I can ask the team about it, though, to see what all would be involved.

[yancylo]

@ernstki thanks for writing back! Is there a newer tool you use internally that's analogous to RELI and takes hg38 data? :)
On my end, I am trying to see if I can create the dependency files for RELI to run on hg38. I think I can liftover the SNPtable and ChIP-seq data and get hg38 chromosome sizes fairly easily (please let me know if liftover is not recommended), but I am not sure what to do with the null model. Could you explain what the columns mean in data/Null/CommonSNP_MAFmatch and what is the recommended way to construct a similar file for hg38? Thank you!