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bioRxiv · 10.1101/785774

The Pop-gen Pipeline Platform: A Software Platform for Facilitating Population Genomic Analyses

Webb, A.·Knoblauch, J.·Sabankar, N.·Sukesh Kallur, A.·Hey, J.·Sethuraman, A.
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Abstract

Here we present the Pop-Gen Pipeline Platform (PPP), a software platform with the goal of reducing the computational expertise required for conducting population genomic analyses. The PPP was designed as a collection of scripts that facilitate common population genomic workflows in a consistent and standardized Python environment. Functions were developed to encompass entire workflows, including: input preparation, file format conversion, various population genomic analyses, output generation, and visualization. By facilitating entire workflows, the PPP offers several benefits to prospective end users - it reduces the need of redundant in-house software and scripts that would require development time and may be error-prone, or incorrect. The platform has also been developed with reproducibility and extensibility of analyses in mind. The PPP is an open-source package that is available for download and use at https://ppp.readthedocs.io/en/latest/PPP_pages/install.html

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Webb, A., Knoblauch, J., Sabankar, N., Sukesh Kallur, A., Hey, J., Sethuraman, A.. 2019-09-30. The Pop-gen Pipeline Platform: A Software Platform for Facilitating Population Genomic Analyses. https://doi.org/10.1101/785774

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