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aertslab / pycisTopic

pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
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fail to run AUCell_direct due to memory. #184

Open JinKyu-Cheong opened 3 weeks ago

JinKyu-Cheong commented 3 weeks ago

I'm working on 160k cell multiome dataset. I started from more than 200k but I downsampled it. Ive been running one rule at a time using the snakemake pipline. I'm using 1Tb memory, and 20-70 cores, it keeps crashing during the enrichment score calculation in AUcell_direct step. Do you have any suggestion on this issue? I cannot request more resources than 1Tb and 70 cores.

Thanks!