FindVariableFeatures_split: Find variable features within subsets

In neurogenomics/scNLP: NLP for Single-cell Omics.

Find variable features within subsets

Description

Extension of Seurat::FindVariableFeatures that finds variable features within each subset of the data.

Usage

FindVariableFeatures_split(
  seurat,
  split.by,
  nfeatures = 4000,
  count_overall = FALSE,
  return_nested = FALSE,
  nfeatures_max = 2000,
  batches = 10
)

Arguments

seurat	Seurat object.
split.by	Metadata variable to split data into subsets.
nfeatures	The number of variable genes to select.
count_overall	Whether nfeatures should be interpreted as the number of variable genes overall (TRUE) or per subset (FALSE).
return_nested	Return a named list of variable genes per subset (TRUE) or a flattened list (FALSE).
nfeatures_max	The max number of features to return.
batches	Number of batches. Features are prioritised according to how many variable gene subsets they appear in.

Examples

var_features <- FindVariableFeatures_split(seurat=scNLP::pseudo_seurat, split.by = 'batch')

neurogenomics/scNLP documentation built on Oct. 8, 2024, 5:30 p.m.