norm_exprs {scater} | R Documentation |
Convenience functions to access commonly-used assays of the
SingleCellExperiment
object.
norm_exprs(object) norm_exprs(object) <- value stand_exprs(object) stand_exprs(object) <- value fpkm(object) fpkm(object) <- value
object |
|
value |
a numeric matrix (e.g. for |
a matrix of normalised expression data
a matrix of standardised expressiond data
a matrix of FPKM values
A matrix of numeric, integer or logical values.
Davis McCarthy
example_sce <- mockSCE() example_sce <- logNormCounts(example_sce) head(logcounts(example_sce)[,1:10]) head(exprs(example_sce)[,1:10]) # identical to logcounts() norm_exprs(example_sce) <- log2(calculateCPM(example_sce) + 1) stand_exprs(example_sce) <- log2(calculateCPM(example_sce) + 1) tpm(example_sce) <- calculateTPM(example_sce, lengths = 5e4) cpm(example_sce) <- calculateCPM(example_sce) fpkm(example_sce)