setQCFlags-NanoStringGeoMxSet-method: Add QC flags to feature and protocol data simultaneously

setQCFlags,NanoStringGeoMxSet-methodR Documentation

Add QC flags to feature and protocol data simultaneously

Description

Add QC flags to feature and protocol data simultaneously

Usage

## S4 method for signature 'NanoStringGeoMxSet'
setQCFlags(object, qcCutoffs = DEFAULTS, ...)

Arguments

object

name of the object class to perform QC on

  1. NanoStringGeoMxSet, use the NanoStringGeoMxSet class

qcCutoffs

list of cutoffs and thresholds to use for QC

...

optional parameters to pass

Value

the object that QC was performed on

Examples

datadir <- system.file("extdata", "DSP_NGS_Example_Data",
                       package="GeomxTools")
demoData <- readRDS(file.path(datadir, "/demoData.rds"))
setQCFlags(demoData[,1:10])


Nanostring-Biostats/GeomxTools documentation built on Sept. 24, 2024, 4:51 p.m.