Vicente Yepez

the limiting factor seems to be the memory. Can you try with 3 cores? (the counting step uses 3cores/sample, so in this way 1 sample at a time will be...

which required files are you interested in extracting? which subsequent runs do you mean? If the `--rerun-triggers` parameter is used, DROP will not need to rerun the counting.

Hi. The way the counting is performed in the AS module is as follows. Split reads are counted in an annotation-free way. A splice map is generated with the junctions...

Hi @lemdcock , were you able to check this?

Hi Laurenz, sorry for the late reply, can you tell us the number of genes and samples in your `ods_filtered` object?

Dear Laurenz, I'm checking the memory requirements by testing some of our cohorts and come back to you after it's finished. On the meanwhile, OUTRIDER was designed to test gene...

Dear Laurenz, I just finished running a complete instance of OUTRIDER including optimizing q in a count matrix of 17248 genes x 741 samples. I provided 30 cores. It took...