Question: DEG analysis of microarray data using R (.cel file unavailable)
gravatar for sunifeb12
17 months ago by
sunifeb120 wrote:

I would like to do a differential gene expression analysis on a microarray data using the simpleaffy package in R. I was following this particular tutorial for doing the analysis, as I am a newbie in this field. Unfortunately, for a particular dataset used for my study, .cel file is not available and only .txt file/ SOFT file is available for download. Can these files be analysed using the simpleaffy package? Or is there a way out how to proceed with the analysis? Any help in this would be greatly appreciated.


ADD COMMENTlink modified 17 months ago by h.mon27k • written 17 months ago by sunifeb120
gravatar for h.mon
17 months ago by
h.mon27k wrote:

You can use the GEOquery package, see this tutorial for help:

ADD COMMENTlink written 17 months ago by h.mon27k

So after loading the SOFT file to R using GEOquery, would I be able to proceed with the pre-processing & analysis using the simpleaffy package? Thanks for the suggestion!

ADD REPLYlink written 17 months ago by sunifeb120
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2227 users visited in the last hour