mockSVG {spatialDE}

R Documentation

Generate count matrix for spatially variable genes.

Description

Generate count matrix for spatially variable genes.

Usage

mockSVG(size = 10, tot_genes = 1000, de_genes = 100, return_SPE = FALSE)

Arguments

size	An integer scalar. Cells will be spatially arranged on a size x size grid. Default: 10, corresponding to 100 cells.
tot_genes	An integer scalar. Total number of genes. Default: 1000.
de_genes	An integer scaler. The number of spatially variable genes. Default: 100.
return_SPE	A logical, whether to return result as a SpatialExperiment. Default: FALSE.

Value

If return_SPE = TRUE, returns a SpatialExperiment object.

If not, a list containing:

• coordinates: data.frame with x and y columns;

• counts: matrix with generated gene counts.

Examples

spe <- mockSVG(10, tot_genes = 200, de_genes = 20, return_SPE = TRUE)
spe

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