Mark
Mark
Easy fix to this? I want to make a volcano plot but I have a bunch of p-values at 0.
Seems I have answered my own question. Very easy fix. in stats.py if you change pvals = 2 * (1 - scipy.stats.norm(loc=0, scale=1).cdf(wald_statistic)) to pvals = 2 * (scipy.stats.norm(loc=0, scale=1).sf(wald_statistic))...
@NanoCoreUSA I am in the same boat now. What did you settle on?
Yeah I have had similar issues with diffxpy too. Make sure you are not passing the scaled X.. if not then it is an issue with diffxpy not you. I...
> Hi, thanks for posting all the great material! I'm running through your PyDeseq2 notebook and you pass a 'clinical' argument when you create the DeseqDataSet. This doesn't compile for...
I don't really use diffxpy much anymore because it has these little unaddressed issues. I mostly do psuedobulk with pydesq2 now
This would be a nice addition! I am running into the same problem
Not working in 1.0.6 either, with code that previously worked. Outage? Hasn't been working since at least yesterday though