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velocyto-team / velocyto.py

RNA velocity estimation in Python
http://velocyto.org/velocyto.py/
BSD 2-Clause "Simplified" License
160 stars 83 forks source link

Make run10x faster #333

Open michaeleekk opened 2 years ago

michaeleekk commented 2 years ago

Hello.

I'm trying to look for a flag to speed up the run but the only two flags that I could find is the number of threads and RAM use for SAM. I wonder if there would be ways to speed up the second half where it's trying to do the counting of batches ? Would a Multi-threading or multi-processing work for the counting loop ?

LamineTourelab commented 11 months ago

Hi @michaeleekk, I am asking the same question so i wonder if you found the solution to speed up the run10x ?

Thanks