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Old 07-24-2015, 07:34 AM   #1
xiangwulu
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Location: ireland

Join Date: Apr 2014
Posts: 18
Default apply Negative Binomial Distribution (NBD) to ribosome profiling data simulation.

Hi,

I want to apply Negative Binomial Distribution to my ribo-seq data simulation process in order to mimic the real data.

The reason of doing this is because I want to compare with the analysis and results of real human ribo-seq data, for my other part of the work.

I have:

- a number of RefSeq human transcripts (e.g. the NM_ ) as the source of simulation

- read length distribution from 26bp-32bp (derived from real ribo-seq data)

The real ribo-seq data would have a character that the footprint for transcripts will be different between each sub-codon position and reflect the correct Open Reading Frame. (e.g. http://lapti.ucc.ie/bicoding/Known_f..._001172437.png)

I thought the distribution would mainly reflect this.

But I am very confused where to start with, e.g. how to map the distribution model into my case. I wish someone would give me some hints or advises on this, thanks.
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