processing_Seurat: Normalize and run PCA with Seurat

In vallotlab/IDclust: Iterative Differential Clustering for single-cell

Normalize and run PCA with Seurat

Description

Runs Seurat PCA with 10 PC and by removing the first component. See ChromSCape::preprocessing_filtering_and_reduction()

Usage

processing_Seurat(Seu, n_dims = 50, dim_red = "pca")

Arguments

Seu	A Seurat object to preprocess with Seurat.
n_dims	An integer specifying the number of first dimensions to keep in the dimensionality reduction step.
dim_red	The name of the slot to save the dimensionality reduction at each step in the Seurat::Reductions(Seu).

Value

A Seurat object with the dimensionality reduction filled

Examples

data(Seu)

vallotlab/IDclust documentation built on July 5, 2024, 3:26 p.m.