Hello,
This is my first post in the forum here.
I am trying to implement Transcription factor (TF) activity estimation on large scRNA dataset. I tried the R implementation of the decoupler package, but the run_ulm step didn’t complete after waiting >30mins for a ~50k cell dataset. I checked the reference (R ver.) and there doesn’t appear to be any multi-threading support for this func. at least. So, I checked the API description of python implementation here and couldn’t find any parameter for multi-threading support again.
I searched for a similar post on this forum and haven’t found anything related.
Hence my query: Is there support for multi-threading in python implementation of decoupler? I would want to test this on datasets with >100k cells and without some sort of parallelisation this would become intractable.
I would much appreciate if there is any guidance/ tips available to scale decoupler to large datasets. There appears to be support for parallel computing within pySCENIC (though I haven’t tested it).
Thanks!