| Intensity.Norm {anapuce} | R Documentation |
Function to compute normalized intensity for each channel
Description
Computes normalized intensity for each channel and each array from the file containing normalized data.
Usage
Intensity.Norm(fileIN = "resNorm.txt", n = 3, ind.array = NULL,
name.A = "A", name.M = "M.norm", sep = "\t", center = FALSE,
log.transf = TRUE, ...)
Arguments
fileIN |
input dataframe. |
n |
number of identificant columns. |
ind.array |
indices of arrays to use. |
name.A |
character string containing a regular expression contained in the columnames corresponding to the A values. |
name.M |
character string containing a regular expression contained in the columnames corresponding to the M values. |
sep |
the field separator string to use in the read.table function. |
center |
logical indicating wether data will be centered by array. |
log.transf |
logical indicating wether data will stay log-transformed. |
... |
Further arguments to be passed to read.table. |
Value
A R dataframe containing the n first columns of the input dataframe and the "normalized" intensity for the red and green channels of each chosen array.
Author(s)
J. Aubert
References
Thorne, N.P. (2004) Single-channel normalisation and analysis of twocolour cDNA microarray data, PhD thesis