err

[sotaro-kanematsu]

Hi
I am running MutSpot for discovering non-coding hotspots in WGS.
I am getting errors as below when MutSpot is searching indels although MutSpot detects hotspots with regard to SNVs.

Indel file as below is used as input.

error message
[[5298]]
[1] "Error in predict.glmnet(object = LRmodel, newx = data.matrix(roi.feat.indel), : \n The number of variables in newx must be 6\n"
attr(,"class")
[1] "try-error"
attr(,"condition")
<simpleError in predict.glmnet(object = LRmodel, newx = data.matrix(roi.feat.indel), type = "response"): The number of variables in newx must be 6>

indel input file format

chr1 67972 67973 CA/CA/CA C/C/C WGS001
chr1 89755 89756 AT/AT/AT A/A/A WGS0005
chr1 99072 99073 CT/CT/CT C/C/C WGS0006
chr1 235932 235933 TGCTG/TGCTG/TGCTG T/T/T WGS2752

[AmandaMilou]

Hello,
Could you check how does the roi.feat.indel look like?