Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
🫧🧬 From fragmented assemblies to high-quality bacteriophage genomes
A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes
A reconfigurable machine learning pipeline for labeling ORFs/proteins in bacteriophage genomes and metagenomic data.
A proof-of-concept, automated and reproducible pipeline for predicting functional associations between pVOGs.
The PhageBox is a digital microfluidics device that integrates temperature and magnetic control modules at the hardware level. This repository contains the embedded software which contains a finite state machine for representing PCR and a graphical user interface for visual feedback and operation.
Simple set of useful scripts to scrape data from PhagesDB.com, using its REST API functionalities.
Sequence-Level Pangenome Variation Graphs for Bacteriophages
PhageFind is a bioinformatic tool for the identification of bacteriophage sequences in de novo assemblies from bacterial sequencing data
A multi-modal 3D voxel tracking, co-registration, and parallel spatial filtering pipeline designed to analyze and validate the biophysical, morphological, and pathognomonic convergence between historical 2D phage virus silhouettes and modern 3D cebidiomorphic Pycnogonida parasitic vectors.
PhageFilter uses a Sequence Bloom Tree (SBT) to filter bacteriophage reads from metagenomic files.
Phage_Finder was developed at The Institute for Genomic Research (TIGR) by Dr. Derrick E. Fouts as a heuristic computer program written in PERL to identify prophage regions within bacterial genomes (Nucleic Acids Research, 2006).
PhageScale: measuring phage dimensions from TEM images
Comparative viromics pipeline designed to profile gut viral communities in neurodysbiosis and control cohorts. Implements de novo MEGAHIT assembly, geNomad prediction, CheckV quality assessment, and Bowtie2 read recruitment to characterize gut bacteriophage signatures in humanized mouse models.
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