Benchmarking grouped matrix averaging methods

Bioconductor / DelayedArray

A unified framework for working transparently with on-disk and in-memory array-like datasets

https://bioconductor.org/packages/DelayedArray

24 stars 9 forks source link

Benchmarking grouped matrix averaging methods #96

Closed bschilder closed 1 month ago

bschilder commented 3 years ago

Wanted to flag this issue here bc I realize there's quite a bit of overlap in many of the these functions between packages.

https://github.com/PeteHaitch/DelayedMatrixStats/issues/82

Update: I've been noticing a higher than expected number of zeros when computing grouped means on sparse DelayedArrays (relative to other similar datasets that were processed using dense base-type matrices). Wondering if this might be related to the point precision.

bschilder commented 1 month ago

@hpages could you provide a link to where this benchmarking was done? Or provide a summary here?

hpages commented 1 month ago

Not sure. I closed this because it's just a link to an issue that you opened in the DelayedMatrixStats repo, which has been closed since. Happy to reopen if you can reformulate the problem here with a reproducible example + sessionInfo(). Thanks!