selectSpots {Spaniel} | R Documentation |
A function to select spots to remove from analysis
selectSpots(sObj, imgObj)
sObj |
Either a Seurat object (version 3) or a SingleCellExperiment object containing barcode coordinates in the metadata (Seurat) or colData (SingleCellExperiment). |
imgObj |
a ggplot grob (see parseImage function) |
Runs a shiny application
## Run the shiny app (Not run): # selectSpots(sObj, imgObj) # Click on the spots to remove from downstream analysis. Once all the spots # have been selected close the shiny app window. A list of spots is # stored in a text file called points_to_remove.txt in the working directory. # Once this step has been run a filtered Seurat or SCE object can be # created using removeSpots (see removeSpots for more details)