If the gene expression measurements are already in a rectangular form, then this function allows an easy way to construct a SingleCellAssay object while still doing some sanity checking of inputs.
FromMatrix(exprsArray, cData, fData, class = "SingleCellAssay")
ncol(exprsArray)
nrow(exprsArray)
.SingleCellAssay
.an object of class class
ncells <- 10 ngenes <- 5 fData <- data.frame(primerid=LETTERS[1:ngenes]) cData <- data.frame(wellKey=seq_len(ncells)) mat <- matrix(rnorm(ncells*ngenes), nrow=ngenes) sca <- FromMatrix(mat, cData, fData)#>stopifnot(inherits(sca, 'SingleCellAssay')) stopifnot(inherits(sca, 'SummarizedExperiment0')) ##If there are mandatory keywords expected by a class, you'll have to manually set them yourself cData$ncells <- 1 fd <- FromMatrix(mat, cData, fData)#>stopifnot(inherits(fd, 'SingleCellAssay'))