I recently installed the new version of scater for R that uses a SingleCellExperiment object instead of the SCESet object. When I read in a 10X dataset using read10XResults, I get a Single Cell Experiment object that looks good. But when I try to remove genes with no values I get an error message when using rowSums: Here is my code

sce10x <- read10XResults(data_dir = "cellranger_input_data")
keep_feature <- rowSums(counts(sce10x) > 0) > 0

The following error is returned

Error in rowSums(counts(sce10x) > 0) : 
  'x' must be an array of at least two dimensions

Any help on this issue?

It's a dgCMatrix object from the Matrix package, which is the natural format for storing sparse data like this. You'll need to load in the Matrix package to access the various methods, including rowSums and friends.