CalculateUCellScores: CalculateUCellScores

In bimberlabinternal/RIRA_classification: A package for the Rhesus Immune Reference Atlas (RIRA): A multi-tissue single-cell landscape of immune cells

CalculateUCellScores

Description

This will calculate a handful of standardized UCell scores for a seurat object

Usage

CalculateUCellScores(
  seuratObj,
  forceRecalculate = FALSE,
  seed = GetSeed(),
  ncores = 1,
  assayName = "RNA",
  storeRanks = TRUE,
  plotCor = TRUE
)

Arguments

seuratObj	The seurat object
forceRecalculate	If true, UCell will always be re-run, even if the field is already present.
seed	If non-null, set.seed() will be called prior to running UCell
ncores	The number of core to use with UCell::AddModuleScore_UCell
assayName	The assay from which to calculate UCell scores.
storeRanks	Passed directly to UCell::AddModuleScore_UCell. Increases object size but makes future calculations quicker.
plotCor	If true, a plot of correlations between the UCell score and each component gene will be shown

bimberlabinternal/RIRA_classification documentation built on April 14, 2025, 5:59 p.m.