Question: Segment Calling Algorithm For Mixed Density Array Cgh
gravatar for Ps376
7.5 years ago by
Ps37620 wrote:

Hi all,

I have a mixed density array CGH (highly densed regions interspersed with low density regoins). Is there a segmentation algorithm out there that works best with this kind of array? That is optimized to call segments (and possibly assign copy number states) for a mixed probe density array?

cnv • 1.4k views
ADD COMMENTlink written 7.5 years ago by Ps37620
gravatar for Sean Davis
7.5 years ago by
Sean Davis25k
National Institutes of Health, Bethesda, MD
Sean Davis25k wrote:

There are several, but I believe this was the first:

BioHMM: a heterogeneous hidden Markov model for segmenting array CGH data

ADD COMMENTlink written 7.5 years ago by Sean Davis25k


Thanks so much for the suggestion! I am looking into BioHMM, and it definitely seems useful. You mention there are several such algorithms...would you happen to know any others specifically? Since I am working on new data, I wanted to be able to try different algorithms to see what works best for our dataset. Thanks again!!

ADD REPLYlink written 7.5 years ago by Ps37620
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