OTUbase (version 1.22.0)

assignmentData: assignmentData

Description

These accessors access and replace the assignmentData slot of OTUbase objects. assignmentData is an AnnotatedDataFrame. assignmentData and assignmentData<- access and replace this AnnotatedDataFrame. assignmentLabels and assignmentLabels<- access and replace the labels of this AnnotatedDataFrame. aData and aData<- access and replace the dataframe component of the AnnotatedDataFrame.

assignmentNames returns the assignment names present in the assignmentData slot.

Usage

aData(object,...) aData(object)<-value assignmentData(object,...) assignmentData(object)<-value assignmentLabels(object,...) assignmentLabels(object)<-value assignmentNames(object,...)

Arguments

object

An OTUset or a TAXset object

value

The replacement value for assignmentData or assignmentLabels

...

Added for completeness. Enables the passing of arguments.

Value

aData returns a dataframe. assignmentData returns an AnnotatedDataFrame. assignmentLabels returns a character. assignmentNames returns a character.

Examples

## locate directory with data
dirPath <- system.file("extdata/Sogin_2006", package="OTUbase")

## read in data into OTUset object
soginOTU <- readOTUset(dirPath=dirPath, level="0.03", samplefile="sogin.groups", fastafile="sogin.fasta", otufile="sogin.unique.filter.fn.list", sampleADF="sample_metadata.txt")

## get the aData dataframe
aData(soginOTU)

## get the assignmentData slot
assignmentData(soginOTU)