What is the time complexity of SCENIC+?

aertslab / scenicplus

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.

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What is the time complexity of SCENIC+? #323

Closed WhenMelancholy closed 3 months ago

WhenMelancholy commented 3 months ago

Discussed in https://github.com/aertslab/scenicplus/discussions/321

^{Originally posted by **WhenMelancholy** March 12, 2024} Hello everyone, I am currently running the SCENIC+ data processing pipeline on a small dataset of 3k cells, and this process took several hours. I am curious about the time complexity of SCENIC+ and whether it is linear. I wonder how long it would take to run this algorithm on a dataset with 5M cells. Thank you for your help!

SeppeDeWinter commented 3 months ago

Hi @WhenMelancholy

I answered your question on: https://github.com/aertslab/scenicplus/discussions/321. Please don't open duplicate issues.

I wish you a nice day.

All the best,

Seppe