How to fix missing values error message after SCTransform (Seurat)?

0

Hey ya'll,

This is the error I am getting:

> scfp3 <- SCTransform(scfp3, method = "glmGamPoi", vars.to.regress = "percent.mt", verbose = FALSE)

Error in density.default(x = genes_log_gmean_step1, bw = "nrd", adjust = 1) : 
  'x' contains missing values
In addition: Warning message:
In vst(method = "glmGamPoi", umi = new("dgCMatrix", i = c(0L, 2L,  :
  NaNs produced

I think this error might be because there are zero integers in the expression matrix. For example the data frame looks like this enter image description here

Could someone help me solve this, please? I have been messing around with changing Na to zeros and vice versa, no solution yet. I will keep trying.


Seurat


R


SCTransform

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