The Pop-Gen Pipeline Platform: A Software Platform for Population Genomic Analyses
Andrew E. Webb, Jared Knoblauch, Nitesh Sabankar, Apeksha Sukesh Kallur, Jody Hey, Arun Sethuraman
Abstract
The Pop-Gen Pipeline Platform (PPP) is a software platform for 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, and output generation. 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.
Topics & Concepts
BiologyPipeline (software)SoftwarePopulationEvolutionary biologyComputational biologyBioinformaticsProgramming languageComputer scienceDemographySociologyGene expression and cancer classificationGenetic Mapping and Diversity in Plants and AnimalsGenetic Associations and Epidemiology