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-   -   edgeR BCV plot interpretation (http://seqanswers.com/forums/showthread.php?t=34022)

Kennels 09-25-2013 11:03 PM

edgeR BCV plot interpretation
 
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Hi,

Would someone be so kind as to help me interpret this BCV plot (in somewhat laymans terms) generated from edgeR? It is based on RNA-seq data (expected counts from RSEM) from 2 samples and 1 control.
My take is that at low counts there is very high variability, but I can't tell if this is good or bad in terms for downstream analysis, as the plot is quite different from the ones in the edgeR manual, and there is a 'dip' at logCPM of around 1.

By the way, the CommonDispersion was:
Disp = 0.2688 , BCV = 0.5185

thank you

Kennels 09-26-2013 05:27 PM

bump - anyone?


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