Tyler Sagendorf

> @TylerSagendorf Hi maybe this is an unrelated issue to your question, but which version did you use? I am using the latest version and I found getGOLevel() function was...

@igordot This addresses issue #19 . I thought this might be helpful, but feel free to scrap this if you don't think it is necessary.

@igordot No worries. I'll probably make a helper package, then, that has some helper functions for this and the `fgsea` package. I'll let you know when I've had time to...

> To clarify, this is really an aesthetic change to make the name easier to read, right? For example, `GOBP_5_PHOSPHORIBOSE_1_DIPHOSPHATE_METABOLIC_PROCESS` becomes `5-phosphoribose 1-diphosphate metabolic process` and `GOBP_ACTIVATION_OF_CYSTEINE_TYPE_ENDOPEPTIDASE_ACTIVITY_INVOLVED_IN_APOPTOTIC_PROCESS_BY_CYTOCHROME_C` becomes `activation of ...

I'm guessing if you modify the value passed to `width` in `Heatmap` instead of `grid.rect`, that will fix things; i.e., `width = heatmap_width / 2`. The problem is that the...

> It's a a little hard to test these changes with the pkgdown website. Could you install this branch and rebuild your site locally? > > ```r > pak::pak("r-lib/pkgdown@issue-2712") >...

> IMO this already looks _ok_, and the real solution is to add some hierarchy to your articles. Hierarchy = combining related articles? In hindsight, it probably would have been...

This worked for me. Thank you! Also, you can use `FLIBS = -L$(GCC_LOC)/lib/gcc/current` to avoid needing to change the version number.

@gregpoore @nicolerg I have also noticed this issue. I have implemented a fix here: https://github.com/pnnl/fast.ssgsea. Manuscript in review.

@drmani ssGSEA2.0 is shuffling the values of the genes, rather than their labels, when calculating permutation ES. The definition of the ES requires that the gene-level values are first sorted...