Slim down a Seurat object — DietSeurat • Seurat

Keep only certain aspects of the Seurat object. Can be useful in functions that utilize merge as it reduces the amount of data in the merge

Usage

DietSeurat(
  object,
  layers = NULL,
  features = NULL,
  assays = NULL,
  dimreducs = NULL,
  graphs = NULL,
  misc = TRUE,
  counts = deprecated(),
  data = deprecated(),
  scale.data = deprecated(),
  ...
)

Arguments

object: A Seurat object
layers: A vector or named list of layers to keep
features: Only keep a subset of features, defaults to all features
assays: Only keep a subset of assays specified here
dimreducs: Only keep a subset of DimReducs specified here (if NULL, remove all DimReducs)
graphs: Only keep a subset of Graphs specified here (if NULL, remove all Graphs)
misc: Preserve the misc slot; default is TRUE
counts: Preserve the count matrices for the assays specified
data: Preserve the data matrices for the assays specified
scale.data: Preserve the scale data matrices for the assays specified
...: Ignored

Value

object with only the sub-object specified retained