Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation.

ABSTRACT: In the modern genomic era, scientists without extensive bioinformatic training need to apply high-power computational analyses to critical tasks like phage genome annotation. At the Center for Phage Technology (CPT), we developed a suite of phage-oriented tools housed in open, user-friendly web-based interfaces. A Galaxy platform conducts computationally intensive analyses and Apollo, a collaborative genome annotation editor, visualizes the results of these analyses. The collection includes open source applications such as the BLAST+ suite, InterProScan, and several gene callers, as well as unique tools developed at the CPT that allow maximum user flexibility. We describe in detail programs for finding Shine-Dalgarno sequences, resources used for confident identification of lysis genes suc

SUBMITTER: Ramsey J 

PROVIDER: S-EPMC7660901 | biostudies-literature | 2020 Nov

REPOSITORIES: biostudies-literature