summarizeNegatives: Calculate negative probe summary stats

In Nanostring-Biostats/GeomxTools: NanoString GeoMx Tools

Calculate negative probe summary stats

Description

Calculate negative probe summary stats

Usage

summarizeNegatives(object, functionList = c())

Arguments

object	name of the NanoStringGeoMxSet object to summarize
functionList	optional list of additional functions to calculate negative probe stats, list element names should correspond to expected stat column header

Value

a NanoStringGeoMxSet object with negative probe summary stats appended to sample data

Examples

datadir <- system.file("extdata", "DSP_NGS_Example_Data",
                       package="GeomxTools")
demoData <- readRDS(file.path(datadir, "/demoData.rds"))
demoData <- 
    summarizeNegatives(demoData, 
                       functionList=c(mean=mean, min=min, max=max))

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