[BioC] Beginner: resources, WebArray and CARMAweb.
paolo.innocenti at ebc.uu.se
Mon Jun 4 12:28:51 CEST 2007
I'm a new PhD student: I will work on gene expression in Drosophila
(using Affymetrix GeneChip 2.0), but before running the arrays I would
like to learn how to analyze them.
After successfully installing R and the BioConductor packages, I have
some problems in finding the right packages for my purposes.
- A good place to begin with? I found these links:
- Where can I find raw data (the concept of raw data is still unclear in
my mind) in the right format (the concept of right format is still
unclear as well) to improve my skills in R and to test the packages?
- I found a few web-based applications for "friendly" microarray
data-analysis, using R and BioConductor packages (e.g. WebArray or
CARMAweb): are they a good substitute for the command-line (at least
during the apprenticeship), widespread-used?
PS. More details: I work on sex-dependent gene expression in D.
melanogaster, looking for sexual conflict in different loci, so I will
(roughly) make a comparison between expression of genes in high- and
low-fitness male, high- and low-fitness female, and the offspring.
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