probes2table {affycoretools}R Documentation

Convert Affy Probe ids to Annotated HTML Table

Description

A function to convert a vector of Affy ids to an annotated HTML table.

Usage

probes2table(eset, probids, lib, otherdata = NULL,
 anncols = aaf.handler()[c(1:3, 7:8, 10:13)], html = TRUE, text = FALSE,
 express = TRUE, save = FALSE, filename)

Arguments

eset An ExpressionSet containing Affy expression values.
probids A vector of probe ids.
lib An annotation package for the Affy chips used.
otherdata A *named* list of additional information to include in the resulting table. Examples would be t-statistics, p-values, fold change, etc. Each list item should be a vector the same length as the probids vector. The name associated with each list item will be used as the column name in the resulting table.
anncols A vector of things to annotate, produced by a call to aaf.handler().
html Output data in HTML tables? Defaults to TRUE.
text Output data in text tables? Defaults to TRUE.
express Output expression values in table? Defaults to TRUE.
save Should tables be saved as R objects for further processing? Defaults to FALSE.
filename Filename of the resulting HTML table.

Value

If save is TRUE, a data.frame is saved containing the data.

Author(s)

James W. MacDonald <jmacdon@med.umich.edu>

See Also

topTable, aafTableAnn


[Package affycoretools version 1.8.1 Index]