makeFCList {affycoretools}R Documentation

Make a Fold Change List

Description

This function is used to create a list containing named lists of fold change values suitable to be passed to probes2table, and ultimately aafTableAnn in the annaffy package. This is an internal function and is not intended to be called by end users.

Usage

makeFCList(x, indices, comps, dat)

Arguments

x An indicator matrix showing up or down regulation based on fold change, usually from a call to foldFilt. See details for more information.
indices A list created by a call to makeIndices.
comps A list containing all the comparisons to be made. Each list item should be a vector of length two. This should be identical to the 'comps' argument used in the call to foldFilt
dat A matrix containing the expression values, usually extracted using the exprs accessor.

Details

The purpose of this function is to create a list of named lists that will be suitable to be passed to probes2table, which will result in a column of fold change values with a reasonable name when output as an HTML or text table using annaffy.

Author(s)

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


[Package affycoretools version 1.8.1 Index]