This function removes genes that are very lowly expressed.
Usage
filterGenes(spe, prop = 0.1)
# S4 method for class 'SpatialExperiment'
filterGenes(spe, prop = 0.1)
# S4 method for class 'Seurat'
filterGenes(spe, prop = 0.1)
Arguments
- spe
a SpatialExperiment, Seurat, or SpatialFeatureExperiment object containing count data.
- prop
a numeric, indicating the proportion of loci/cells where the gene should be expressed (default is 0.1, i.e., genes should be expressed in at least 10% of the loci/cells).
Value
a logical vector encoding which genes should be kept for further analysis.
Examples
data(HumanDLPFC)
keep <- filterGenes(HumanDLPFC)
table(keep)
#> keep
#> TRUE
#> 5076