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1 Department of Animal Ecology and Tropical Biology (Zoology III), University of Würzburg, Germany 2 Center for Computational and Theoretical Biology, University of Würzburg 3 Department of Bioinformatics, University of Würzburg 4 Centre for Experimental Molecular Medicine, University Clinics Würzburg, Germany 5 Research Group for Ancient Genomics and Evolution, Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tübingen, Germany 6 Department of Civil and Environmental Engineering, Massachusetts Institute of Technology 7 Fraunhofer Institute for Molecular Biology and Applied Ecology IME, Applied Ecology and Bioresources, Gießen, Germany a These authors contributed equally to this work DOI: 10.21105/joss.00464

chloroExtractor: extraction and assembly of the chloroplast genome from whole genome shotgun data