createGmatFromMat ERROR

[gengbaobao]

Hello developer

I run "x.sp = createGmatFromMat(obj = x.sp, input.mat="bmat", genes=genes.sel.gr, do.par = T, num.cores = 2)", but get this error "Error in count.df[, 2] : subscript out of bounds".

How to fix it?

Thanks

[fancody]

I've had this issue recently as well. I modified the line 96: count.i = data.use[,idx.bins.i,dropping=TRUE] to count.i = data.use[,idx.bins.i]; and the line 104: count.i = Matrix::rowSums(data.use[,idx.bins.i,dropping=TRUE]); to count.i = Matrix::rowSums(data.use[,idx.bins.i); in SnapATAC-master/R/createGmat.R.
After that, add before running createGmatFromMat
source('/SnapATAC-master/R/createGmat.R')
library(parallel)
This makes createGmatFromMat work successfully, but I'm not sure if this change will affect the result

[fzhaouf]

createGmatFromMat this function has error. when subsetting a matrix, should be using drop not dropping which is not correct syntax. data.use[, idx.bins.i, drop=TRUE]