read.phenoData {Biobase}R Documentation

Read 'phenoData'

Description

Create an instance of class phenoData by reading a file or by using widgets.

Usage

read.phenoData(filename = NULL, sampleNames = NULL, widget = getOption("BioC")$Base$use.widgets, ...)

Arguments

filename filename from which to read information for pData slot.
sampleNames sampleNames for rows of pData. If widgets are used this is required.
widget logical. If TRUE and a filename is not given, widgets are used to enter information.
... Further arguments to read.table

Details

The function read.table is used to read pData. The function must be a flat file. The first row must be the column names which are the covariate names. The first column must be the sampleNames. Entries must be space delimited unless otherwise specied through ....

If a filename overides the widget argument.

If no filename is given and no widgets are used a dummy phenoData object is created for the sampleNames. See example.

Value

An instance of class phenoData

Author(s)

Rafael A. Irizarry <rafa@jhu.edu>

See Also

phenoData, tkphenoData

Examples

pd <- read.phenoData(sampleNames=c("sample1","sample2"),widget=FALSE)
show(pd)
show(pData(pd))

[Package Biobase version 1.8.0 Index]