RPKM (reads assigned per kilobase of target per million mapped reads) normalization is available for RNA-Seq experiments. When RPKM is selected, the signal values for each experiment will be divided by the total bases of target sequence divided by one thousand; and the resulting number divided by the total number of mapped reads divided by one million.
For the RPKM normalization method, the target sequence is defined by what you use as genes for your template sequences (see Set Up Preprocessing for CNV and RNA-Seq Data). Three items related to the calculation of RPKM can be displayed as optional columns in the Gene Table (see Using the Manage Columns Dialog).