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