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De novo transcriptome assembly and SNP study with redundant PE reads mcastro RNA Sequencing 1 10-22-2011 03:40 PM

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Old 01-21-2016, 03:20 PM   #1
milo0615
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Location: Walnut, California

Join Date: Dec 2012
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Default SNP Discovery From De Novo Assembly

Hello,

I have Illumina pair-end reads of two species. Major objective is to identify SNP among both the species. I did the de novo assembly of species 1 and 2 using ABYSS, then compared the two species using LASTZ and uploaded it into GBrowse. However, I would now like to identify SNP's between the two species. Is there an accurate way to find de novo SNP's between the two species? I would really appreciate your help.

Thank you,

-Milo
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