clusterCentres: Retrieve the cluster centres.

In CRUKMI-ComputationalBiology/twoddpcr: Classify 2-d Droplet Digital PCR (ddPCR) data and quantify the number of starting molecules

Description

clusterCentres retrieves the cluster centres for a ddpcrWell object or the centres for each well in a ddpcrPlate object.

combinedCentres retrieves the cluster centres for all of the wells together.

Usage

clusterCentres(theObject, cMethod)

## S4 method for signature 'ddpcrWell'
clusterCentres(theObject, cMethod)

## S4 method for signature 'ddpcrPlate'
clusterCentres(theObject, cMethod)

combinedCentres(theObject, cMethod)

## S4 method for signature 'ddpcrPlate'
combinedCentres(theObject, cMethod)

Arguments

theObject	A ddpcrWell or ddpcrPlate object.
cMethod	The classification method for which to obtain the centres.

Value

If a ddpcrWell object is given, clusterCentres returns the cluster centres as a data frame.

If a ddpcrPlate object is given, clusterCentres return a list of data frames, where each data frame corresponds to the cluster centres of a well.

combinedCentres returns a data frame of the centres of all of the wells combined.

Author(s)

Anthony Chiu, [e-mail]

Examples

## Get the centres of a sample with 4 clusters.
aWell <- ddpcrWell(well=KRASdata[["E03"]])
clusterCentres(aWell, "Cluster")

## Get the centres of a sample with 3 clusters.
aWell <- ddpcrWell(well=KRASdata[["H04"]])
clusterCentres(aWell, "Cluster")

## Retrieve the cluster centres of each of the wells in a \code{ddpcrPlate}
## object.
krasPlate <- ddpcrPlate(wells=KRASdata)
clusterCentres(krasPlate, cMethod="Cluster")

## Retrieve the cluster centres of all wells combined.
combinedCentres(krasPlate, cMethod="Cluster")

CRUKMI-ComputationalBiology/twoddpcr documentation built on Feb. 14, 2021, 9:18 p.m.