Get and set feature loadings

Get and set feature loadings

Loadings(object, ...)

Loadings(object, ...) <- value

# S3 method for DimReduc
Loadings(object, projected = FALSE, ...)

# S3 method for DimReduc
Loadings(object, projected = TRUE, ...) <- value

# S3 method for Seurat
Loadings(object, reduction = "pca", projected = FALSE, ...)

Arguments

object

An object

...

Arguments passed to other methods

value

Feature loadings to add

projected

Pull the projected feature loadings?

reduction

Name of reduction to pull feature loadings for

Value

Loadings: the feature loadings for object

Loadings<-: object with the updated loadings

Examples

# Get the feature loadings for a given DimReduc
Loadings(object = pbmc_small[["pca"]])[1:5,1:5]
#>               PC_1        PC_2        PC_3        PC_4        PC_5
#> PPBP    0.33832535  0.04095778  0.02926261  0.03111034 -0.09042074
#> IGLL5  -0.03504289  0.05815335 -0.29906272  0.54744454  0.21460343
#> VDAC3   0.11990482 -0.10994433 -0.02386025  0.06015126 -0.80920759
#> CD1C   -0.04690284  0.19835522 -0.35090617 -0.51112169 -0.13030628
#> AKR1C3 -0.03894635 -0.42880452  0.08845847 -0.27274386  0.08779165

# Set the feature loadings for a given DimReduc
new.loadings <- Loadings(object = pbmc_small[["pca"]])
new.loadings <- new.loadings + 0.01
Loadings(object = pbmc_small[["pca"]]) <- new.loadings

# Get the feature loadings for a specified DimReduc in a Seurat object
Loadings(object = pbmc_small, reduction = "pca")[1:5,1:5]
#>               PC_1        PC_2        PC_3        PC_4        PC_5
#> PPBP    0.33832535  0.04095778  0.02926261  0.03111034 -0.09042074
#> IGLL5  -0.03504289  0.05815335 -0.29906272  0.54744454  0.21460343
#> VDAC3   0.11990482 -0.10994433 -0.02386025  0.06015126 -0.80920759
#> CD1C   -0.04690284  0.19835522 -0.35090617 -0.51112169 -0.13030628
#> AKR1C3 -0.03894635 -0.42880452  0.08845847 -0.27274386  0.08779165