conos (version 1.5.0)

quickPlainPCA: Use space of combined sample-specific PCAs as a space

Description

Use space of combined sample-specific PCAs as a space

Usage

quickPlainPCA(
  r.n,
  data.type = "counts",
  ncomps = 30,
  n.odgenes = NULL,
  var.scale = TRUE,
  verbose = TRUE,
  score.component.variance = FALSE,
  n.cores = 1
)

Value

PCA projection, using space of combined sample-specific PCAs

Arguments

r.n

list of pagoda2 objects

data.type

character Type of data type in the input pagoda2 objects within r.n (default='counts')

ncomps

numeric Number of components to calculate (default=30)

n.odgenes

numeric Number of overdispersed genes to take from each dataset (default=NULL)

var.scale

boolean Whether to scale variance (default=TRUE)

verbose

boolean Whether to be verbose (default=TRUE)

score.component.variance

boolean Whether to score component variance (default=FALSE)

n.cores

numeric Number of cores to use (default=1)