removeSpots {Spaniel} | R Documentation |
A function to filter spots from analysis. It requires selectSpots to be run first.
removeSpots(sObj, pointsToRemove = "points_to_remove.txt")
sObj |
Either a Seurat object (version 3) or a SingleCellExperiment object containing barcode coordinates in the metadata (Seurat) or colData (SingleCellExperiment). |
pointsToRemove |
path to points to remove file. Default is "points_to_remove.txt" |
A filtered Seurat or SingleCellExperiment Object
sceObj <- readRDS(file.path(system.file(package = "Spaniel"), "extdata/sceData.rds")) toRemove <- file.path(system.file(package = "Spaniel"), "points_to_remove.txt") sceObj_filtered <- removeSpots(sObj = sceObj, pointsToRemove = toRemove)