[BioC] Regarding Phenodata and MAIME data

James MacDonald jmacdon at med.umich.edu
Wed Jun 9 16:39:18 CEST 2004

You don't need either phenoData or MIAME information in order to analyze
your data. These things are simply useful information that you *could*
use for analysis (in the case of phenoData), or for data reporting (in
the case of MIAME). Neither is strictly necessary. In fact, I personally
have yet to use either.



James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109

>>> SAURIN <saurin_jani at yahoo.com> 06/09/04 10:27AM >>>
Dear Bioconductor,

I have CEL files ONLY, no other files I have. 
how should I read phenodata or MAIME information from there. Do i need
Phenodata.txt/MAIME.txt for
Microarray analysis or make one or where can i get it? 

Presently I am doing:

my.filenames <- list.files(,"CEL");
f <- as.matrix(my.filenames);
n <- nrow(f); # to get number of files in my list make use for furthere

my.pheno <- read.phenoData(sampleNames = my.filenames);
abatch <- ReadAffy(filenames = my.filenames,phenoData = my.pheno);

I am student at University of New Haven,CT and I am doing Microarray
analysis  by myself.

I highly appreciate your reply,

Saurin Jani

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