plateClassificationMethod: Set or retrieve the classification method strings for...

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

Description

plateClassificationMethod retrieves multiple classification methods that have been assigned to a ddpcrPlate object.

commonClassificationMethod retrieves the classification methods common to all the wells in the given ddpcrPlate object.

Usage

plateClassificationMethod(theObject)

## S4 method for signature 'ddpcrPlate'
plateClassificationMethod(theObject)

plateClassificationMethod(theObject, cMethod) <- value

## S4 replacement method for signature 'ddpcrPlate'
plateClassificationMethod(theObject, cMethod) <- value

commonClassificationMethod(theObject)

## S4 method for signature 'ddpcrPlate'
commonClassificationMethod(theObject)

Arguments

theObject	A ddpcrPlate object.
cMethod	This should represent existing classification method(s) for all wells in theObject. It can be given in the form of a: Character vector. If this vector is shorter than the length of wells, this vector's elements will be repeated. List of character vectors.
value	New classification method(s) in the same form as cMethod.

Value

plateClassificationMethod returns a list of character strings corresponding to the classification methods.

commonClassificationMethod returns a vector of character strings indicating which classification methods appear in all wells.

Author(s)

Anthony Chiu, [e-mail]

See Also

plateClassification for the classifications.

Examples

## Get the classification methods for the KRASdata dataset.
krasPlate <- ddpcrPlate(wells=KRASdata)
plateClassificationMethod(krasPlate)

## Change the "Cluster" column to "QS".
plateClassificationMethod(krasPlate, "Cluster") <- "QS"
plateClassificationMethod(krasPlate)

## Usually, all of the classification names are the same for all wells. We
## use the \code{commonClassificationMethod} method to retrieve the ones
## common to all wells.
commonClassificationMethod(krasPlate)

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