What it does

The Limma analysis tool performs single analysis either of data previously retrieved from GEO database or normalized affymetrix .CEL files data. Given a .cond file, it runs a standard limma differential expression analysis.

Example of .cond file

The .cond file should look like this

GSM80460       series of 16 tumors     GSM80460 OSCE-2T SERIES OF 16 TUMORS
GSM80461       series of 16 tumors     GSM80461 OSCE-4T Series of 16 Tumors
GSM80462       series of 16 tumors     GSM80462 OSCE-6T Series of 16 Tumors
GSM80476       series of 4 normals     GSM80476 OSCE-2N Series of 4 Normals
GSM80477       series of 4 normals     GSM80477 OSCE-9N Series of 4 Normals

Results

• Boxplots, p-value histograms and a volcano plot
• Table summarizing the differentially expressed genes and their annotations. This table is sortable and requestable.
• Rdata object to perform further meta-analysis.