Reorder idents by the gene expression — srt_reorder • scop

Reorder idents by the gene expression

Usage

srt_reorder(
  srt,
  features = NULL,
  reorder_by = NULL,
  layer = "data",
  assay = NULL,
  log = TRUE,
  distance_metric = "euclidean"
)

Arguments

srt: A Seurat object.
features: Features used to reorder idents.
reorder_by: Reorder groups instead of idents.
layer: Specific layer to get data from.
assay: Specific assay to get data from.
log: Whether log1p transformation needs to be applied. Default is TRUE.
distance_metric: Metric to compute distance. Default is "euclidean".

Examples

data("pancreas_sub")
pancreas_sub <- srt_reorder(
  srt = pancreas_sub,
  reorder_by = "SubCellType",
  layer = "data"
)
#> ! [2025-07-03 08:52:51] Using 'Seurat::AggregateExpression()' to calculate pseudo-bulk data for 'Assay5'.