TY - JOUR T1 - Enhanced Pipeline ‘MetaGaAP-Py’ for the Analysis of Quasispecies and Non-Model Microbial Populations using Ultra-Deep ‘Meta-barcode’ Sequencing JF - bioRxiv DO - 10.1101/171520 SP - 171520 AU - Christopher Noune AU - Caroline Hauxwell Y1 - 2017/01/01 UR - http://biorxiv.org/content/early/2017/08/02/171520.abstract N2 - A pipeline developed to establish sequence identity and estimate abundance of non-model organisms (such as viral quasispecies) using customized ultra-deep sequence ‘meta-barcodes’ has been modified to improve performance by re-development in the Python programming language. Redundant packages were removed and new features added. RAM and storage usage have been optimized to facilitate the computational speeds though coding optimizations and improved cross-platform compatibility. However, computational limits restrict the approach to barcodes spanning a maximum of 30 polymorphisms. The modified pipeline, MetaGaAP-Py, is available for download here: https://github.com/CNoune/IMG_pipelines ER -