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Old 08-26-2011, 05:41 AM   #1
M&M
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Location: Michigan

Join Date: May 2011
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Default Calculate baseline expected fpkm?

Is there a measure I could use to calculate a baseline expected fpkm per transcript based on sequencing coverage in a single sample? I'd then like to use this to compare with the fpkm generated from cufflinks in the isoforms.fpkm_tracking file and generate a p-value on the fpkm per isoform per sample. These are tumor samples and I don't have matched normals, so I'm trying to figure out an alternative
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