Closed alexheubeck closed 3 years ago
@alexheubeck , thanks, you caught a pretty nasty bug resulting from some necessary changes for the flowFrame
->cytoframe
transition that we hadn't yet made. It's fixed in https://github.com/RGLab/flowWorkspace/commit/c816cf509936a892971004b5f960de2b4650ed59, so hopefully everything should be good after re-installing flowWorkspace
from GitHub. Otherwise, I'm merging that fix over to Bioconductor so it should be available there in flowWorkpsace
version 4.1.14
in a couple of days.
Thanks @jacobpwagner, much appreciated. I think my scripts are working properly again. Thanks again for the fast response!
Sounds good. I'm going to close this then as this problem seems pretty self-contained and now fixed. But feel free to re-open it if you run in to this again somehow.
Hi @jacobpwagner,
I updated flowWorkspace to 4.1.13, and the
gs_pop_get_stats
function is now returninginf
MFI values for all populations that aren't the root node.This is the line I'm using:
mfi <- as_tibble(gs_pop_get_stats(gs,type = pop.MFI,inverse.trans=TRUE))
And this is the table it's returning:
It's the same thing for the other files in the gating set. I haven't changed anything else in the script since it was working correctly, so just seeing if something changed with that function.
Thanks,
Alex