I think this is a known issue, but a student expressed some irritation about the 'lack of reproducibility' if two students queue up the same command line but get radically different answers to the motif look-up
I don't remember the exact question, but I think it might be due to the random selection of 200 bp windows across the genome, which then are used as background for the survey. I wonder if there's a way that we make this uniform - perhaps set the random seed so that each time the same sequences are selected, or preselect the sequences.
Or, just explain the differences (e.g., make them re-run it).
It does seem a bit strange that running this the same way does get radically different answers -- if the randomization process is truly random, shouldn't the variation between runs be slight?
I think this is a known issue, but a student expressed some irritation about the 'lack of reproducibility' if two students queue up the same command line but get radically different answers to the motif look-up
I don't remember the exact question, but I think it might be due to the random selection of 200 bp windows across the genome, which then are used as background for the survey. I wonder if there's a way that we make this uniform - perhaps set the random seed so that each time the same sequences are selected, or preselect the sequences.
Or, just explain the differences (e.g., make them re-run it).
It does seem a bit strange that running this the same way does get radically different answers -- if the randomization process is truly random, shouldn't the variation between runs be slight?