Eric Talevich
Eric Talevich
I merged a possible fix in #914. Could you try pulling the latest development version and see if the problem is fixed now?
The deed is done. I apologize for the bot spam. @mr-c -- I've split CNVkit into two pip/conda packages, where the only difference is whether the `pomegranate` and `pytorch` dependencies...
Could work, depending on the cancer. Is this leukemia/lymphoma? If you're not sure about your "normal" samples, you could try running CNVkit with a "flat" reference on those samples to...
Thanks for the guidance. I can update the CNVkit requirements to use `pomegranate >= 0.14.8,
Fixed here: https://github.com/etal/cnvkit/pull/911 Does installation work for you now?
Yep, sorry for the wait. I've released a new version with this fix: https://github.com/etal/cnvkit/releases/tag/v0.9.12
Looks like the same issue as #436 Could you try the development version from GitHub and see if that works for you? Alternatively, you could remove the rows in your...
I haven't tried that, but it seems like it could work better than nothing. Did you try it?
Since CDKN2A and CDKN2B overlap in the genome, you won't be able to separate them completely. But if you plot both genes with the `scatter` command, you should be able...