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I want to know if GATK can do what I want! NGS reads, polyploids, phylogeny

joqbjoqb Member Posts: 3
edited January 2013 in Ask the GATK team

Hello,
I have 454 reads of loci on polyploid individuals. I am able to produce assemblies containing the different copies of one locus per individual. But I want to extract the reads corresponding to each copies, to then be able to produce phylogenies.
Does the GATK can do something like this?

Thanks,

Answers

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