RT Journal Article SR Electronic T1 Pathogen-Host Analysis Tool (PHAT): an Integrative Platform to Analyze Pathogen-Host Relationships in Next-Generation Sequencing Data JF bioRxiv FD Cold Spring Harbor Laboratory SP 178327 DO 10.1101/178327 A1 Christopher M. Gibb A1 Robert Jackson A1 Sabah Mohammed A1 Jinan Fiaidhi A1 Ingeborg Zehbe YR 2017 UL http://biorxiv.org/content/early/2017/08/18/178327.abstract AB Summary The Pathogen-Host Analysis Tool (PHAT) is an application for processing and analyzing next-generation sequencing (NGS) data as it relates to relationships between pathogen and host organisms. Unlike custom scripts and tedious pipeline programming, PHAT provides an integrative platform encompassing sequence and reference file input, quality control (QC) reporting, alignment and variant calling, linear and circular alignment viewing, and graphical and tabular output. This novel tool aims to be user-friendly for biologists studying diverse pathogen-host relationships.Availability and Implementation The project is publicly available on GitHub (https://github.com/chgibb/PHAT) and includes convenient installers, as well as portable and source versions, for both Windows and Linux (Debian and RedHat). Up-to-date documentation for PHAT, including user guides and development notes, can be found at https://chgibb.github.io/PHATDocs/. We encourage users and developers to provide feedback (error reporting, suggestions, and comments) using GitHub Issues.Contact Lead software developer: gibbc{at}tbh.net