SubsetDataFlex: Subset data flexibly from a Seurat object.

In maehrlab/thymusatlastools: Tools for analysis of single-cell transcriptomic data

Description

Subset data flexibly from a Seurat object.

Usage

SubsetDataFlex(dge, vars.use, predicate, preserve_raw = FALSE,
  results_path = NULL, show_on_tsne = !is.null(results_path), ...)

Arguments

dge	Seurat object
vars.use	Variables to fetch for use in 'predicate'.
predicate	String to be parsed into an R expression and evaluated as an arg to base::subset.
preserve_raw	If TRUE, then it will not exclude any cells from the @raw.data slot. By default, it leaves cells in @raw.data only if they satisfy the given predicate.
results_path	Where to save the tSNE.
show_on_tsne	If true, save a tSNE showing which cells are kept.
...	Extra params passed to tsne_colored.

Details

Calls FetchData, subsets it as a dataframe using base::subset, and subsets the Seurat object correspondingly (using the df rownames.)

maehrlab/thymusatlastools documentation built on May 28, 2019, 2:32 a.m.