Bioinformatics | The Phage

Phynteny: Phage Genome Annotation with Machine Learning

November 14, 2024

The study of bacteriophages, or simply “phages,” is one of the most fascinating areas of microbiology. These are viruses that infect bacteria, and they…

The Impact of Stop Codon Reassignment Significantly Affects Phage Annotation

August 18, 2024

Stop codon reassignment is a genetic phenomenon where the traditional role of stop codons in terminating protein synthesis is altered, allowing these codons to…

tax_myPHAGE: Taxonomy Classification Tool for bacteriophages

August 11, 2024

Knowing exactly what your phages are and whether any of that kind already exists in the database is crucial for any phage scientist. However,…

Phage genome annotated by PHAROKKA then PHOLD tool by Raphael

Phold: Phage Genome Annotation Using Protein Structural Homology

July 21, 2024

I know the majority of phage scientists have used Pharokka for phage annotation at one point. Despite being a very helpful tool, there were…

PhageScope: A new web-based tool for decoding the phage genome

November 15, 2023

In the dynamic realm of bioinformatics, a transformative tool has emerged to unravel the intricacies of bacteriophages. PhageScope, a cutting-edge web-based tool developed by…

Pharokka: Empowering Phage Genomic Annotation

August 27, 2023

In 21st-century research, where sequences burgeon, the demand for efficient and scalable genomic annotation tools has never been more pronounced. The recent arrival of…

iPHoP: The Ultimate Host Prediction Tool for Microbial Viruses

August 20, 2023

Integrated Phage Host Prediction, or iPHoP, is a command-line pipeline for automatically determining the host genus of new bacteriophages and archaea viruses based on…

Assembling Phage Genomes: De Novo vs Reference-Based Methods

February 18, 2023

Recent advances in sequencing technologies have significantly improved the ability to generate large volumes of high-quality sequence data. However, the challenge lies in accurately…