search

RahmanTeam / DECoN

50 stars 29 forks source link

Error with CNVcalls #5

Open baliczap opened 5 years ago

baliczap commented 5 years ago

Dear All,

I try to call CNV-s from a set of 5 samples. I was able to generate RData file without difficulty. However during CNVcall I get the following error message:

Error in 1:nrow(brca) : argument of length 0 Execution halted

What could cause this issue? Thank you Peter

smerella commented 5 years ago

Hi, I have the same problem with my dataset. Any suggestion?

smerella commented 5 years ago

I found a temporary solution. In the file makeCNVcalls.R at line 171, I added a print(brca) to see which genes were the problem. I removed some of those genes and I run ReadInBams again with the new panel. In this case makeCNVCalls worked.

glbala87 commented 1 year ago

Hi Smeralla,

Can you please share your makeCNVcalls.R file for reference? I am also getting the same error.

Thank you