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Old 01-31-2012, 05:11 AM   #1
Bioinfo83
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Location: LaBaronessa

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Default GATK to discover Single Nucleotide Variation in mature miRNA from miRNA-Seq

Hi,
for my final project, I am looking for Single Nucleotides Variants in mature miRNA starting from an experiment of miRNA-Seq on different cancer cell lines.
I would ask you, if is correct to use GATK UnifiedGenotyper to make this kind of analysis, and if is correct to perform also the Local Realignemnt.
Thank you in advance for your suggestion.
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