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Please note that the normalization method used by Partek Genomics Suite is Reads Per Kilobase per Million mapped reads (RPKM) (Mortazavi et al. 2008). In brief, this normalization method counts total reads in a sample, divides by one million to create a per million scaling factor for each sample; then divides the read counts for the feature (exon, transcript, or gene) by the per million scaling factor to normalize for sequencing depth and give a reads per million value; and finally divides reads per million values by the length of the feature (exon, transcript, or gene) in kilobases to normalize for feature size. 

• Select 1 (RNA-Seq) from the spreadsheet tree
• Select mRNA quantification in the Analyze Known Genes section of the RNA-seq workflow

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• Select RefSeq Transcripts 20142017-0105-0302 from the mRNA section of the Specify a database of genomic features to quantify panel of the dialog

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• Select OK to perform the RNA-Seq quantification 

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The _reads and _rpkm spreadsheets

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