Oligo and Limma

Question

[questionaire]

I have just normalized a dataset with Oligo and annotated with it as well. I was wondering if anyone knows of any pipeline or command lines to do differential expression (gene by gene variance) with Limma on that normalized data. Thank you in advance.

Answer 1

[emmapead2]

Is your normalised data of class ExpressionSet? If so, carry on and use limma. Look at the documentation for examples.

https://bioconductor.org/packages/release/bioc/vignettes/limma/inst/doc/intro.pdf