run.umap: Run UMAP on PCA data (Computes a manifold approximation and...

In rezakj/scSeqR: scSeqR; a toolkit to analyze single cell sequencing data types (i.e scRNA-seq) and large numeric matrix files.

Run UMAP on PCA data (Computes a manifold approximation and projection)

Description

This function takes an object of class scSeqR and runs UMAP on PCA data.

Usage

run.umap(x = NULL, dims = 1:20, method = "naive")

Arguments

x	An object of class scSeqR.
dims	PC dimentions to be used for UMAP analysis.
method	Character, implementation. Available methods are 'naive' (an implementation written in pure R) and 'umap-learn' (requires python package 'umap-learn'). Choose from "naive" and "umap-learn", defilt = "naive".

Value

An object of class scSeqR.

Examples

## Not run: 
my.obj <- run.umap(my.obj, dims = 1:10)

## End(Not run)

rezakj/scSeqR documentation built on March 28, 2022, 12:17 p.m.