Create a DimReduc object
Create a DimReduc object
CreateDimReducObject( embeddings = new(Class = "matrix"), loadings = new(Class = "matrix"), projected = new(Class = "matrix"), assay = NULL, stdev = numeric(), key = NULL, global = FALSE, jackstraw = NULL, misc = list() )
embeddings |
A matrix with the cell embeddings |
loadings |
A matrix with the feature loadings |
projected |
A matrix with the projected feature loadings |
assay |
Assay used to calculate this dimensional reduction |
stdev |
Standard deviation (if applicable) for the dimensional reduction |
key |
A character string to facilitate looking up features from a specific DimReduc |
global |
Specify this as a global reduction (useful for visualizations) |
jackstraw |
Results from the JackStraw function |
misc |
list for the user to store any additional information associated with the dimensional reduction |
A DimReduc object
data <- GetAssayData(pbmc_small[["RNA"]], slot = "scale.data") pcs <- prcomp(x = data) pca.dr <- CreateDimReducObject( embeddings = pcs$rotation, loadings = pcs$x, stdev = pcs$sdev, key = "PC", assay = "RNA" )
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