Sunday, 1 January 2012

PoPoolation2: Identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq) Open Access

Summary: Sequencing pooled DNA samples (Pool-Seq) is the most cost-effective approach for the genome-wide comparison of population samples. Here, we introduce PoPoolation2, the first software tool specifically designed for the comparison of populations with Pool-Seq data. PoPoolation2 implements a range of commonly used measures of differentiation (FST, Fisher's exact test and Cochran-Mantel-Haenszel test) that can be applied on different scales (windows, genes, exons, SNPs). The result may be visualized with the widely used Integrated Genomics Viewer.

Availability and implementation: PoPoolation2 is implemented in Perl and R. It is freely available on

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