Closed lh12565 closed 3 years ago
Yeah, that looks fine to me.
First, check that your region file is correct (e.g. the second line shows that the start coordinate is after the end coordinate).
The number of regions shouldn't be a problem. If you just care about quantification, you can run with the --suppress_plots
or --suppress_report
parameter which will run much faster and not produce plots.
Let me know if it works for you!
Yeah, that looks fine to me.
First, check that your region file is correct (e.g. the second line shows that the start coordinate is after the end coordinate).
The number of regions shouldn't be a problem. If you just care about quantification, you can run with the
--suppress_plots
or--suppress_report
parameter which will run much faster and not produce plots.Let me know if it works for you!
Hi, @kclem , thank you for your quick reply. I have one more question. I don't want to output the "ANALYZED_REGIONS (folder)". It takes too long and doesn't make sense to me. How do I set parameters to avoid it? Thanks!
The ANALYZED_REGIONS folder is created as part of the processing. Would it work to just delete the folder after your run?
Hi, I have a normal and knock out (CRISPR) data from WGS. I want to investigate off-target effects. I run blast on sgRNA and get 60-100% identity sequences and location, a total of ~25000. I don't know how to use CRISPResso2 for evaluation and if the following command is correct:
ko.txt like:
If it is correct, it may cause many results and graphs. Is there a simpler output and statistics to evaluate off-target effects? Thanks!