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findDMRs.r error #13
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It could be a formatting issue. I suggest you check that. |
If you post part of the file as text here, I can try to replicate the error. |
Thank you so much chr start end CpG C1-N C1-X C2-N C2-X E1-N E1-X E2-N E2-X this is top100 lines of original file |
I don't get an error when I run that:
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Hello, I found the main problem. It was R version. Using anaconda, I made and ran the command in the R 3.6.1 version. It works well. When I use R version 4.1, error comes up. I think we should know about that. |
The issue can be solved in R 4.3.1 by making the following modification to the findDMRs.r script - sort chromosome names by number/letterlevel <- levels(res$chr) Hope this helps!! |
Thanks you for adding the solution here. It would really help if this was also in the README. |
Hello all!
When running findDMRs.r, one error came out. But, I don't know why that error came out.
There were 50 or more warnings (use warnings() to see the first 50)
Error in if (substr(level[i], 1, 3) == "chr") { :
argument is of length zero
Execution halted
I think this is simple error such as format of object. Is there any good suggestion?
Thanks!
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