[BioC] limma

[Peter Wilkinson]

Ah yes you are right I can type the function in. I would prefer to get the 
source code for the comments. The problem is that I did not notice where 
the source code resides. I have downloaded from the source link from the 
bioconductor site, and I will try that.

Thanks for your input.

Peter

At 10:44 AM 7/15/2004, James MacDonald wrote:
>The code is available to you right now. The easiest way to get it is to
>type normalizeWithinArrays at an R prompt, copy and paste into your
>favorite editor. If you want the source code with any comments that may
>exist, you will have to download the source version of limma, untar and
>gunzip it and then open norm.R in your favorite editor.
>
>HTH,
>
>Jim
>
>
>
>James W. MacDonald
>Affymetrix and cDNA Microarray Core
>University of Michigan Cancer Center
>1500 E. Medical Center Drive
>7410 CCGC
>Ann Arbor MI 48109
>734-647-5623
>
> >>> Peter Wilkinson <pwilkinson at videotron.ca> 07/14/04 05:36PM >>>
>Hi there,
>
>I would like to explore the idea of creating a function that is
>a  modification of the normalizeWithinArrays() with printtiploess
>option of
>the limma package.
>
>We are spot quality control prior to normalization which results in
>some
>genes being dropped. Once that happens then we no longer have complete
>
>sub-grids; normlizeWithinArrays will nor longer work with the printtip
>
>loess option. So I wish to make a modification to the
>normalizeWithinArrays
>function that will re-index each sub-grid, so that the print top loess
>can
>be performed.
>
>So I have been looking for the source code for limma, but it seams to
>be
>unavailable since the package is distributed as a binary. I have
>checked
>the author's page but its not there either.
>
>I would like permission to look into the limma package source code and
>
>re-factor the normalizeWithinArrays() function to do what I want.
>
>Can somebody send me the source code ?
>
>Peter
>
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