Closed adbeggs closed 4 years ago
I got this error myself a while back and it was annoying to debug.
The error is with circlize and it crashs if you have a breakpoint between a contig it knows about and a contig it ignores. In your case, it's the 6 NUMT-like calls between MT and autosomes.
The workaround is to remove them:
gr_chr = gr_chr[seqnames(gr_chr) %in% c(1:22,"X","Y")]
gr_chr = gr_chr[names(gr_chr) %in% gr_chr$partner]
You should raise this issue with circlize.
Hi
Great piece of software.. trying to follow the vignette but having lots of problems with my Manta derived SV calls.
candidateSV.zip
Then get the error:
"Error: nrow of 'region 1' and 'region 2' differ
I've done a sanity check and confirmed that the number of rows is the same so don't quite understand the error really - it might me something I'm missing.
Thank you!
Andrew