Preprocess SingleCellExperiments and Spatial Experiments
Usage
preprocess(
object,
min_umi = 500,
max_umi = NULL,
assay = "counts",
remove_mito = FALSE
)
Arguments
- object
SingleCellExperiment or SpatialExperiment, if AnnData or Seurat it will be converted
- min_umi
minimum umi count for spots/cells
- max_umi
maximimum umi
- assay
assay to use for calculation, you can use any assay but counts is recommended
- remove_mito
remove mitochondria genes
