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Parallel processing in subsample.py#197
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SichongP wants to merge 17 commits into
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Added deconcat scripts
Added script to make Seurat input
Making collapse_isoforms_by_sam.py compatible with SAM file multiprocessing
Fix seurat input script
Adds parallelization to subsampling as this script takes too long to run right now
Actually print out results
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This PR adds parallelization to subsampling as this script takes too long to run right now.
I tested new script with 10,000 total reads at 100 reads step size and 100 iterations:
With original script:
With parallel script (5 threads):
The improvement should be more pronounced in real samples as multiprocessing overhead becomes negligible.