cluster_analysis_integrate_rare: cluster_analysis_integrate_rare

In CIARA: Cluster Independent Algorithm for Rare Cell Types Identification

cluster_analysis_integrate_rare

Description

cluster_analysis_integrate_rare

Usage

cluster_analysis_integrate_rare(
  raw_counts,
  project_name,
  resolution,
  neighbors,
  max_dimension,
  feature_genes = NULL
)

Arguments

raw_counts	Raw count matrix (n_genes X n_cells).
project_name	Character name of the Seurat project.
resolution	Numeric value specifying the parameter resolution used in the Seurat function FindClusters.
neighbors	Numeric value specifying the parameter k.param in the Seurat function FindNeighbors
max_dimension	Numeric value specifying the maximum number of the PCA dimensions used in the parameter dims for the Seurat function FindNeighbors
feature_genes	vector of features specifying the argument features in the Seurat function RunPCA.

Value

Seurat object including raw and normalized counts matrices, UMAP coordinates and cluster result.

Author(s)

Gabriele Lubatti [e-mail]

See Also

https://www.rdocumentation.org/packages/Seurat/versions/4.0.1/topics/FindClusters https://www.rdocumentation.org/packages/Seurat/versions/4.0.1/topics/FindNeighbors https://www.rdocumentation.org/packages/Seurat/versions/4.0.1/topics/RunPCA

CIARA documentation built on March 18, 2022, 6:48 p.m.