Title — tunePhiSpace • PhiSpace

Title

tunePhiSpace(
  reference,
  assayName = "logcounts",
  phenotypes = NULL,
  YY = NULL,
  ncomp = NULL,
  impScores = NULL,
  center = TRUE,
  scale = FALSE,
  tune_ncomp = TRUE,
  tune_nfeat = TRUE,
  ncompLimits = c(1, 100),
  ncompGridSize = 20,
  ncompGrid = NULL,
  selectedFeat = NULL,
  nfeatLimits = c(10, 15000),
  nfeatGridSize = 30,
  nfeatV = NULL,
  Kfolds = 5,
  regMethod = "PLS",
  labelCode = "-1,1",
  Ncores = 1,
  seed = 5202056
)

Arguments

reference: SingleCellExperiment object.
assayName: Character.
phenotypes: Character.
YY: Matrix.
ncomp: Integer.
impScores: Matrix.
center: Logical.
scale: Logical.
tune_ncomp: Logic.
tune_nfeat: Logic.
ncompLimits: Vector.
ncompGridSize: Integer.
ncompGrid: Vector.
selectedFeat: Vector.
nfeatLimits: Vector.
nfeatGridSize: Integer.
nfeatV: Vector.
Kfolds: Integer.
regMethod: Character.
labelCode: Character.
Ncores: Integer.
seed: Integer.

Value

A list