multiPhATE

multiPhATE performs de novo gene calling and comprehensive functional annotation of phage genomes to enable high-throughput analysis of phage genomic datasets.

Key Features:

• Automated Throughput Annotation: Automates invocation of PhATE across multiple phage genomes to enable batch annotation.
• De Novo Gene Calling: Identifies potential genes within phage genomes without relying on pre-existing annotations.
• Functional Annotation: Assigns putative functions to predicted proteins using protein-, virus-, and phage-centric databases.
• Modular Construction: Provides a modular design allowing selection of pipeline components via local database instances and configuration files.
• Scalability and Parallel Processing: Supports parallel execution across multiple processors for high-throughput sequencing projects.

Scientific Applications:

• Phage genome annotation: Demonstrated by annotation of two newly sequenced Yersinia pestis phage genomes.
• Large-scale phage genomics: Enables simultaneous processing of multiple genomes for high-throughput phage genomics projects.

Methodology:

Performs de novo gene calling, invokes PhATE for functional annotation, assigns putative functions using protein-, virus-, and phage-centric databases, allows modular component selection via local database instances and configuration files, and supports parallel execution across multiple processors.