getReductionGenes: Get top loaded features for PCA or ICA dimensional reduction.

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Get top loaded features for PCA or ICA dimensional reduction.

Description

Get top loaded features for PCA or ICA dimensional reduction.

Usage

getReductionGenes(feature.loading, sig.threshold = 0.99, top.is.positive = T)

Arguments

feature.loading	Feature loading matrix
sig.threshold	Numeric specifying top nth percentile of features to return. Default: 0.99.
top.is.positive	Logical specifying whether to enforce top loaded feature being positive. If negative, loading sign is inverted.

Value

list of ggplot handles

Author(s)

Nicholas Mikolajewicz

Examples

feature.loading <- as.matrix(seurat.object@reductions[[reduction]]@feature.loadings)
red.res <- getReductionGenes(feature.loading = feature.loading,  sig.threshold = 0.99)

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.