viral-ngs: command line tools and wrappers for processing raw viral genomic data
☆197Oct 16, 2026Updated last week
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 10 years ago
- VIGOR4☆24Aug 15, 2025Updated last year
- Kraken taxonomic sequence classification system☆228Sep 27, 2021Updated 5 years ago
- viral-ngs: complete pipelines☆75Oct 16, 2026Updated last week
- 🌈 Interactive analysis of metagenomics data☆455Sep 17, 2025Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Classifier for metagenomic sequences☆281Apr 15, 2026Updated 6 months ago
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 6 years ago
- A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.☆348Apr 12, 2023Updated 3 years ago
- Reference-guided multiple sequence alignment of viral genomes☆72Oct 3, 2026Updated 3 weeks ago
- de novo virus assembler of Illumina paired reads☆59May 17, 2021Updated 5 years ago
- V-pipe is a pipeline designed for analysing NGS data of short viral genomes☆147Aug 2, 2026Updated 2 months ago
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆249Jan 18, 2024Updated 2 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆22Nov 6, 2023Updated 2 years 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.
- Long-read metagenomic analysis☆112Oct 10, 2023Updated 3 years ago
- ☆32Sep 21, 2023Updated 3 years ago
- ATLAS - Three commands to start analyzing your metagenome data☆405May 28, 2026Updated 4 months ago
- Calculates the lowest common ancestors of each query sequence in a Blast result☆32Oct 25, 2017Updated 8 years ago
- A robust, extensible metagenomics pipeline☆177Updated this week
- NCBI-style taxdump files for International Committee on Taxonomy of Viruses (ICTV)☆22May 3, 2025Updated last year
- ☆68Jul 8, 2016Updated 10 years ago
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆227Sep 18, 2025Updated last year
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Calls somatic SNVs, indels, and allelic copy number jointly across multiple samples from the same patient. These can be standard tumor/n…☆10Oct 29, 2020Updated 5 years ago
- Antimicrobial Resistance Identification By Assembly☆187Oct 12, 2023Updated 3 years ago
- Visualization and charting JS library for streaming genomic data☆19Dec 4, 2024Updated last year
- Rapid haploid variant calling and core genome alignment☆595Dec 12, 2025Updated 10 months ago
- variant discovery and annotation using GATK and Ensembl☆17Jun 27, 2013Updated 13 years ago
- An experimental repo for common snakemake rules and workflows☆44Mar 17, 2015Updated 11 years ago
- full taxonomer cython repository☆22Dec 1, 2019Updated 6 years ago
- A Snakefile to parallelize bwa.☆13Oct 25, 2013Updated 12 years ago
- A SARS-CoV-2 Mutation Pattern Query Tool☆17Mar 21, 2023Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data☆34Oct 25, 2013Updated 12 years ago
- An RNA virus strain-level identification tool for short reads.☆23Apr 6, 2026Updated 6 months ago
- A tool to circularize genome assemblies☆258Apr 6, 2024Updated 2 years ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆216Aug 21, 2024Updated 2 years ago
- Code and examples for JHU Computational Genomics class☆318Oct 22, 2024Updated 2 years ago
- An ultrafast optimal aligner for mapping large NGS data to large genome databases.☆59Jul 9, 2024Updated 2 years ago
- Interactively explore metagenomes and more from a web browser.☆502Dec 22, 2021Updated 4 years ago