DoopenTSNE: DoopenTSNE

In milescsmith/ReductionWrappers: Wrapper exposing several Python dimensional reduction tools

DoopenTSNE

Description

Perform tSNE projection on a Seurat object using the openTSNE library, with FIt-SNE selected by default

Usage

DoopenTSNE(
  object,
  reduction_use = "pca",
  reduction_save = "openTSNE",
  dims_use = NULL,
  ...
)

Arguments

object	A Seurat or SingleCellExperiment object to be transformed.
reduction_use	Prior dimensional reduction to use for calculations (i.e. pca, ica, cca, etc...). Default: pca
reduction_save	Name to use for the reduction (i. e. tsne, umap, etc...). Default: openTSNE
dims_use	Dimensions from 'reduction_use' to pass to PHATE
...	Extra parameters to pass to the openTSNE function.

milescsmith/ReductionWrappers documentation built on Jan. 2, 2025, 10:24 a.m.