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TCP-Lab / transportome_profiler

Code to profile the expression of the transportome
GNU General Public License v3.0
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The DESeq2 Fold Change computation is too slow #22

Closed MrHedmad closed 9 months ago

MrHedmad commented 1 year ago

When computing DESeq2 results (with run_deseq.R), the call to DESeq2 takes too long. We are comparing a ton of samples, and each comparison takes a good 5 minutes to complete on my machine.

Since we are going to increase the number of tested tumors and conditions even more, this starts to become unacceptable.

I've asked for help on bioconductor here: https://support.bioconductor.org/p/9154940/