yes and yes
does it look really bad in your opinion?
I also compared results from with mapping of forward read only, same trend

the only thing I can come up with is difference in the library size, as
these replicates have the largest size factors, 1.6 and 1.4

i just tried a local fit when estimating dispresion and looks a bit better,
but still not perfect


On Fri, Oct 5, 2012 at 8:16 PM, wang peter <wng.peter@gmail.com> wrote:

> did u check the read quality?
> and clean the adapter sequences?
> shan
>

	[[alternative HTML version deleted]]

