Phigaro is a scalable command-line tool for predicting phages and prophages
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Updated
Jan 8, 2024 - HTML
Phigaro is a scalable command-line tool for predicting phages and prophages
This is the complete code base used in Robert A. Edwards, Katelyn McNair, Karoline Faust, Jeroen Raes, and Bas E. Dutilh (2015) Computational approaches to predict bacteriophage–host relationships. FEMS Microbiology Reviews doi: 10.1093/femsre/fuv048
PHANOTATE: a tool to annotate phage genomes.
code repo for mobileOG-db
Using graph database techniques to understand the infectious relationships between bacteria and phages.
Identify phage regions in bacterial genomes for masking purposes
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
Scripts to analyze the data for the paper "An outstanding bacterial membranome requires CRISPR-Cas systems to avoid the intervention of phages" and derive the figures or subfigures shown in the manuscript.
DEPRECATED: Discover divergent virus sequences, prune flanking cellular sequences, make basic report
This repository contains the data and scripts used in Simulation Study of Viral Contiguous Sequence Identification Tools
2020 International Genetically Engineered Machine competition
Accelerate common Petri dish assays with AI.
TrIdent- Transduction Identification: Automatic detection, classification and characterization of active transduction events in microbiomes.
Old repository comprising code for my HTHSCI 3BM6 phage modelling project.
Prediction of bacterial host for phage
A powerful deep learning (DL) tool and the trained models for the phage gene and protein identification with convolutional neural network (CNN).
Configurable short read de novo assembly container using SPAdes and bbmap
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