scater_gui {scater} | R Documentation

## scater GUI function

### Description

scater shiny app GUI for workflow for less programmatically inclined users or those who would like a quick and easy way to view multiple plots.

### Usage

    scater_gui(object)

### Arguments

`object` | SinglCellExperiment object after running `calculateQCMetrics` on it

### Value

Opens a browser window with an interactive shiny app and visualize all possible plots included in the scater

### Author(s)

Davis McCarthy and Vladimir Kiselev

### Examples

    data("sc_example_counts")
    data("sc_example_cell_info")
    example_sce <- SingleCellExperiment(
    assays = list(counts = sc_example_counts), colData = sc_example_cell_info)
    example_sce <- normalize(example_sce)
    drop_genes <- apply(exprs(example_sce), 1, function(x) {var(x) == 0})
    example_sce <- example_sce[!drop_genes, ]
    example_sce <- calculateQCMetrics(example_sce,
    feature_controls = list(set1 = 1:40))
    ## Not run:
    scater_gui(example_sce)

    ## End(Not run)

[Package scater version 1.8.4 Index]