Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

Visualize microbial evolution at the SNP level!

bvas: bayesian viral allele selection

Detect Hepatitis A Virus Infection Clusters

This software implements a high-throughput data processing pipeline to identify and charaterize SARS-CoV-2 variant sequences in specimens from COVID-19 positive hosts or environments.

Python tool for relative mutation rate of different genes across viral strains.

A bioinformatics tool for designing primers and generating consensus sequences in viral genome analysis. It supports processing multiple aligned genomic sequences, optimizing primers, and visualizing genome annotations.

Uses k-means prediction to ascertain genomic sequences within ambiguously attributed fasta format data. The resulting cluster sequences are used to develop NCBI BLAST requests.

High accuracy single molecule Nanopore reads using the MrHAMER pipeline

HIV-64148, an integration of multiple long-read genome assemblers with a pipeline for analysis of HIV-1 genomic data from Oxford Nanopore Sequencing Technology or PacBio Real-Time (SMRT) Sequencing technology.

Viral genome assemble and characterisation

RecombinHunt (alias for the software contained in this repository) is a Python library implementing a data-driven novel method for identifying contributing lineages and breakpoints in recombinant viral sequences.

Viral genomics analysis pipelines

TopONE is a project that studies recombination events using topological data analysis. This was made in the PGC-BTIP 2024 internship by Alfonso Miguel Cruz and Claire Angelie Gabisay, and mentored by C.J. Palpal-latoc.