Re: [Samtools-help] Definition of histogram from MarkDuplicates

[Alec W. <al...@br...>]

Hi Mike,

Histogram is described here: 
http://picard.sourceforge.net/javadoc/net/sf/picard/sam/DuplicationMetrics.html#estimateRoi%28long,%20double,%20long,%20long%29

First column is the input parameter x: the multiple of sequencing to be 
simulated (i.e. how many X sequencing)
Second column is the return value: a number z <= x that estimates if you 
had pairs*x as your sequencing then you would observe uniquePairs*z 
unique pairs.

-Alec

On 7/21/10 3:37 PM, Michael Muratet wrote:
> Hello again
>
> How are the bins defined for the histogram produced by MarkDuplicates?
>
> Thanks
>
> Mike
>
> Michael Muratet, Ph.D.
> Senior Scientist
> HudsonAlpha Institute for Biotechnology
> mmu...@hu...
> (256) 327-0473 (p)
> (256) 327-0966 (f)
>
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