Attached is a picture of the HiSeq 2500 run I recently did. The data looks really good. But the user says "I haven’t mapped to the reference genome, but it does not look good. See the sequence duplication levels of FastQC report. Only 4% seq left after removing duplications. It supposed to be over 40%"
What does this mean? And is he analyzing it the right way? This is RNA seq data. Please explain. Not sure If he is aligning properly with the right software.
What does this mean? And is he analyzing it the right way? This is RNA seq data. Please explain. Not sure If he is aligning properly with the right software.
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