createDoublets: createDoublets

In plger/scDblFinder: scDblFinder

createDoublets

Description

Creates artificial doublet cells by combining given pairs of cells

Usage

createDoublets(
  x,
  dbl.idx,
  clusters = NULL,
  resamp = 0.5,
  halfSize = 0.5,
  adjustSize = FALSE,
  prefix = "dbl."
)

Arguments

x	A count matrix of real cells
dbl.idx	A matrix or data.frame with pairs of cell indexes stored in the first two columns.
clusters	An optional vector of cluster labels (for each column of 'x')
resamp	Logical; whether to resample the doublets using the poisson distribution. Alternatively, if a proportion between 0 and 1, the proportion of doublets to resample.
halfSize	Logical; whether to half the library size of doublets (instead of just summing up the cells). Alternatively, a number between 0 and 1 can be given, determining the proportion of the doublets for which to perform the size adjustment. Ignored if not resampling.
adjustSize	Logical; whether to adjust the size of the doublets using the median sizes per cluster of the originating cells. Requires 'clusters' to be given. Alternatively to a logical value, a number between 0 and 1 can be given, determining the proportion of the doublets for which to perform the size adjustment.
prefix	Prefix for the colnames generated.

Value

A matrix of artificial doublets.

Examples

sce <- mockDoubletSCE()
idx <- getCellPairs(sce$cluster, n=200)
art.dbls <- createDoublets(sce, idx)

plger/scDblFinder documentation built on March 20, 2024, 9:46 p.m.