viral-ngs: command line tools and wrappers for processing raw viral genomic data
☆195Apr 2, 2026Updated 2 weeks ago
Alternatives and similar repositories for viral-ngs
Users that are interested in viral-ngs are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SURPI☆86May 10, 2016Updated 9 years ago
- VIGOR4☆21Aug 15, 2025Updated 8 months ago
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- viral-ngs: complete pipelines☆73Apr 9, 2026Updated last week
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.☆347Apr 12, 2023Updated 3 years ago
- 🌈 Interactive analysis of metagenomics data☆447Sep 17, 2025Updated 7 months ago
- Calculates the lowest common ancestors of each query sequence in a Blast result☆32Oct 25, 2017Updated 8 years ago
- Long-read metagenomic analysis☆110Oct 10, 2023Updated 2 years ago
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 4 years ago
- Classifier for metagenomic sequences☆272Jun 20, 2025Updated 9 months ago
- Reference-guided multiple sequence alignment of viral genomes☆71Nov 6, 2025Updated 5 months ago
- ☆68Jul 8, 2016Updated 9 years ago
- Scripts, utilities and programs for genomic bioinformatics.☆83Nov 13, 2025Updated 5 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ATLAS - Three commands to start analyzing your metagenome data☆404Nov 28, 2025Updated 4 months ago
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆244Jan 18, 2024Updated 2 years ago
- A robust, extensible metagenomics pipeline☆175Updated this week
- An RNA virus strain-level identification tool for short reads.☆23Apr 6, 2026Updated 2 weeks ago
- A SARS-CoV-2 Mutation Pattern Query Tool☆17Mar 21, 2023Updated 3 years ago
- Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data☆33Oct 25, 2013Updated 12 years ago
- NCBI-style taxdump files for International Committee on Taxonomy of Viruses (ICTV)☆22May 3, 2025Updated 11 months ago
- Antimicrobial Resistance Identification By Assembly☆187Oct 12, 2023Updated 2 years ago
- Rapid haploid variant calling and core genome alignment☆579Dec 12, 2025Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Kraken taxonomic sequence classification system☆223Sep 27, 2021Updated 4 years ago
- EDGE is a highly adaptable bioinformatics platform that allows laboratories to quickly analyze and interpret genomic sequence data.☆78Mar 19, 2026Updated last month
- Full-length de novo viral haplotype reconstruction from noisy long reads☆21Nov 6, 2023Updated 2 years ago
- V-pipe is a pipeline designed for analysing NGS data of short viral genomes☆146Mar 31, 2026Updated 2 weeks ago
- MIcrobiomes using Compressive Acceleration☆17Feb 10, 2018Updated 8 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- An experimental repo for common snakemake rules and workflows☆46Mar 17, 2015Updated 11 years ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆148Updated this week
- Visualization and charting JS library for streaming genomic data☆19Dec 4, 2024Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Interactively explore metagenomes and more from a web browser.☆499Dec 22, 2021Updated 4 years ago
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆225Sep 18, 2025Updated 7 months ago
- Code and examples for JHU Computational Genomics class☆310Oct 22, 2024Updated last year
- Expectation-Maximization algorithm for Allele-Specific Expression☆22May 9, 2023Updated 2 years ago
- gTaxon - a fast cross-platform NCBI taxonomy data querying (gi2taxid, taxid2taxon, name2taxid, LCA) tool, with cmd client and REST API se…☆14Jul 24, 2016Updated 9 years ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆66May 5, 2023Updated 2 years ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆212Aug 21, 2024Updated last year