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-   -   ART simulator for SNP detection benchmarking (http://seqanswers.com/forums/showthread.php?t=14296)

yhong 09-23-2011 12:03 AM

ART simulator for SNP detection benchmarking
 
I am trying to simulate NGS illumina read data using ART simulator that was used for 1000 genome projects. (http://www.niehs.nih.gov/research/re.../art/index.cfm)
It works great for generating simulated read data and alignment information for each simulated read.

Unlike other simulators such as dwgsim, MAQ simulate, and etc, it does not provide a list of simulated SNPs (usually, in a format of "chrosome# reference_position reference_base simulated_base".

I am wondering if anyone can explain how exactly I can extract a list of simulate SNPs.

Thank you very much in advance!

All the best,
yhong


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