reductionTSNE: reductionTSNE

In LeiLi-Uchicago/Cookie: An sampling method to select representative samples from large population

reductionTSNE

Description

Run t-SNE to project samples into 2D map using pairwise distances

Usage

reductionTSNE(object, perplexity = 30, dim = 2, seed = 42,
  theta = 0.5)

Arguments

object	(For Seurat) Seurat object
perplexity	numeric; Perplexity parameter (should not be bigger than 3 * perplexity < nrow(X) - 1, see details for interpretation)
dim	integer; Output dimensionality (default: 2)
seed	integer; seed for reproducible results.
theta	numeric; Speed/accuracy trade-off (increase for less accuracy), set to 0.0 for exact TSNE (default: 0.5)
assay	(For Seurat) run t-SNE for which assay, choose from RNA, ADT, Joint or All

LeiLi-Uchicago/Cookie documentation built on Jan. 26, 2024, 2:01 p.m.