Differential gene Expression analysis

Question

[sujasubramanian]

hello Davis, As you said early i analyse Affymetrix gene chip microarray data set with limma package, but after log transform of .soft file i loss gene name from the .soft data, how can i get gene id and name

[h.mon]

Please include the code you used, so we can see what (potentially) went wrong and suggest fixes.

There are hundreds (or thousands) of active contributors to the site, you started your question as if you want input from one person only. This is not a good idea because: 1) other people who could contribute might be less inclined to do so; 2) Sean Davis most likely will not see your post - you have to tag him, so he will be warned well, I'll be darned, but he has seen before!

You could modify your post to something akin to:

On a previous post (affymetrix Gene expression .soft file processing) it has been suggested I should use the limma package to analyse Affymetrix microarrays. However, now I am facing a new problem, because after log transform of .soft file i loss gene name from the .soft data. Here is the code used:

Then tag Sean Davis, you can do this by including a link to his BioStars account on your post: Sean Davis