Hi hail team,
is it possible to downsample the QQ plot for specific p-values?
I would like to show sparse datapoints for p-values <0.01 and dense datapoints for p-values >0.01.
Is this something I can do using the hl.plot.qq function?

Others can feel free to chime in if there’s some argument I don’t know about, but my intuition is that the way to do this is to filter or downsample your gwas table in advance.

It’s a request from faculty members here to have more datapoints for higher p-values as it’s a more correct qq-plot, specifically they would like me to set a cutoff of p-value 0.01. Perhaps I can do that by downsampling the gwas table in advance as @johnc1231 suggests. I was just wondering if there was any other way you have done this before.

It’s a request from faculty members here to have more datapoints for higher p-values as it’s a more correct qq-plot

The hl.agg.downsample aggregator called by qq already does this – it does “visual” downsampling, merging points in adjacent pixels, essentially. Unless you have two points with exactly the same p-value, the right tail of the qq plot is going to be at full resolution.