What the Phage

What the Phage predicts bacteriophage sequences and provides downstream annotation and classification from sequence data to support phage identification and analysis.

Key Features:

• Multitool Approach: Integrates multiple phage prediction tools and algorithms to combine different prediction strategies.
• Result Summarization: Produces comprehensive summaries of prediction results using visual representations such as charts and tables.
• Annotation and Classification: Performs downstream annotation and taxonomic or functional classification of predicted phage sequences.
• Scalability and Reproducibility: Scales to thousands of datasets and employs Nextflow as a workflow manager to ensure reproducible execution.

Scientific Applications:

• Microbial ecology: Identification and characterization of phages to study their roles in microbial community dynamics.
• Environmental microbiology: Detection and analysis of phages across environmental samples to assess ecosystem-level phage presence.
• Phage therapy research: Discovery and characterization of candidate therapeutic phages and assessment of their genomic features.
• Phage-host interaction studies: Support for analyses that investigate relationships between phages and their bacterial hosts.
• Novel phage discovery: Screening of sequence datasets to detect previously uncharacterized phage genomes.
• Phage diversity assessment: Evaluation of phage diversity across samples and ecosystems based on predicted and classified sequences.

Methodology:

Integrates diverse phage prediction algorithms and uses Nextflow as a workflow manager to run predictions, followed by annotation and classification of predicted sequences.