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High throughput sequencing has changed many aspects of population genetics, molecular ecology, and related fields, affecting both experimental design and data analysis. The software package ANGSD allows users to perform a number of population genetic analyses on high-throughput sequencing data. The package is specifically designed to produce more accurate results for samples with low sequencing depth, but it handles a wide array of sampling and experimental designs and makes use of full genome data. Here we present ANGSD-wrapper, a user-friendly interface to ANGSD. ANGSD-wrapper includes a number of ’wrapper’ scripts that facilitate configuration and execution of multi-step analyses. ANGSD- wrapper also provides interactive graphing of ANGSD results, thus enhancing data exploration. We demonstrate the usefulness of ANGSD-wrapper by analyzing resequencing data from populations of wild and domesticated Oryza. ANGSD-wrapper is freely available from https://github.com/ arundurvasula/angsd- wrapper.