HaTSPiL: A modular pipeline for high-throughput sequencing data analysis

• DOI: 10.1371/journal.pone.0222512
• Publication Date: 2019-10-15T20:25:08Z
• Authors: Edoardo Morandi; Matteo Cereda; Danny Incarnato; Caterina Parlato; Giulia Basile; Francesca Anselmi; Andrea Lauria; Lisa Marie Simon; Isabelle Laurence...; Francesca Arruga; Silvia Deaglio; Elisa Tirtei; Franca Fagioli; Salvatore Oliviero
• Keywords: Python; MIT License

Background Next generation sequencing methods are widely adopted for a large amount of scientific purposes, from pure research to health-related studies. The decreasing costs per analysis led big amounts generated data and the subsequent improvement software respective analyses. As consequence, many approaches have been developed chain different in order obtain reliable reproducible workflows. However, range applications NGS entails challenge manage workflows without losing reliability. Methods We here present high-throughput pipeline (HaTSPiL), Python-powered CLI tool designed handle with high level relies on barcoding filenames using human readable naming convention that contains any information regarding sample needed by automatically choose parameters. HaTSPiL is highly modular customisable, allowing users extend its features specific need. Conclusions licensed as Free Software under MIT license it available at https://github.com/dodomorandi/hatspil.