podcallThresholds {PoDCall}R Documentation

podcallThresholds

Description

Function sets threshold per channel per well and calculates concentrations. Results are returned as a data frame.

Usage

podcallThresholds(plateData,
                        nchannels=c(1,2)[2],
                        B=200,
                        Q=9,
                        refWell=1,
                        updateProgress=NULL)

Arguments

plateData

List of data frames with amplitude data from a 96 well plate

nchannels

Number of channels used in the experiment (default=2)

B

Number of permutations for the Likelihood Ratio Test (LRT) (default=200)

Q

Parameter for outlier calling (default=9)

refWell

reference well to calculate the shift in baseline (default=1)

updateProgress

function to update progress bar in shiny app (default=NULL)

Value

A table with results and metrics, one row per well.

Examples

## Path to example data
dataPath <- system.file("extdata", "Amplitudes/", package="PoDCall")

## Read in example data
dataList <- importAmplitudeData(dataDirectory=dataPath)

## Set thresholds
thresholds <- podcallThresholds(plateData=dataList,
                                B=100)


[Package PoDCall version 1.2.0 Index]