Get runDropletQC .html report — reportDropletQC • singleCellTK

A function to generate .html Rmarkdown report containing the visualizations of the runDropletQC function output

reportDropletQC(
  inSCE,
  output_file = NULL,
  output_dir = NULL,
  subTitle = NULL,
  studyDesign = NULL
)

Arguments

inSCE: A SingleCellExperiment object containing the full droplet count matrix with the output from runDropletQC function
output_file: name of the generated file. If NULL/default then the output file name will be based on the name of the Rmarkdown template
output_dir: name of the output directory to save the rendered file. If NULL/default the file is stored to the current working directory
subTitle: subtitle of the QC HTML report. Default is NULL.
studyDesign: description of the data set and experiment design. It would be shown at the top of QC HTML report. Default is NULL.

.html file

data(scExample, package = "singleCellTK")
if (FALSE) {
sce <- runDropletQC(sce)
reportDropletQC(inSCE = sce)
}