seurat_reduce_dimensions: Dimensional Reduction

In whtns/seuratTools: Tools for Managing Seurat Objects

Dimensional Reduction

Description

Run PCA, TSNE and UMAP on a seurat object perplexity should not be bigger than 3 * perplexity < nrow(X) - 1, see details for interpretation

Usage

seurat_reduce_dimensions(
  seu,
  assay = "gene",
  reduction = "pca",
  legacy_settings = FALSE,
  ...
)

Arguments

seu	A Seurat object
assay	Assay of interest to be run on the seurat object
reduction	Set dimensional reduction object
legacy_settings	Use legacy settings
...	Extra parameters passed to seurat_reduce_dimensions

whtns/seuratTools documentation built on Oct. 28, 2024, 7:18 a.m.