selectSpots {Spaniel} | R Documentation

## selectSpots

### Description

A function to select spots to remove from analysis

### Usage

    selectSpots(sObj, imgObj)

### Arguments

`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)

### Value

Runs a shiny application

### Examples

    ## 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)

[Package Spaniel version 1.8.0 Index]