Small collection of tools for performing quality control on coronavirus sequencing data and genomes
☆49May 14, 2026Updated 2 months ago
Alternatives and similar repositories for ncov-tools
Users that are interested in ncov-tools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆92Nov 8, 2023Updated 2 years ago
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated last year
- Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Geno…☆15Jul 26, 2022Updated 4 years ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Jul 29, 2021Updated 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.
- The ARTIC fieldbioinformatics pipeline☆136Jul 16, 2026Updated 3 weeks ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆36May 1, 2022Updated 4 years ago
- Static website for the PH4AGE alliance☆14Oct 27, 2023Updated 2 years ago
- Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.☆32Apr 10, 2026Updated 4 months ago
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes☆28Dec 9, 2024Updated last year
- Tools for analyzing and comparing SARS-CoV-2 phylogenies☆10Nov 21, 2020Updated 5 years ago
- ☆51Mar 11, 2022Updated 4 years ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆171Mar 22, 2023Updated 3 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.
- A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.☆349Apr 12, 2023Updated 3 years ago
- Depth-weighted De-Mixing☆135Updated this week
- Software package for assigning SARS-CoV-2 genome sequences to global lineages.☆456Jul 25, 2026Updated 2 weeks ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆137Updated this week
- ☆38Jan 12, 2026Updated 7 months ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆15Jun 14, 2022Updated 4 years ago
- Stitch together Nanopore tiled amplicon data without polishing a reference☆18Jan 29, 2024Updated 2 years ago
- Store of the trained model for pangolin to access.☆55Oct 4, 2022Updated 3 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆41Apr 6, 2026Updated 4 months ago
- Workflow for SARS-CoV-2 genome Assembly at FioCruz/IAM☆28Feb 6, 2024Updated 2 years ago
- ☆21Apr 2, 2025Updated last year
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 2 months ago
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆20Sep 12, 2021Updated 4 years ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆260Updated this week
- ☆22Jun 1, 2026Updated 2 months ago
- Local Lineage and Monophyly Assessment☆16Aug 5, 2021Updated 5 years ago
- ☆75Jan 23, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ntHash implementation in Rust☆36Jul 12, 2024Updated 2 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Jul 6, 2026Updated last month
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Nov 4, 2021Updated 4 years ago
- ☆16May 21, 2026Updated 2 months ago
- a tool for designing primer panels for multiplex PCR.☆110Feb 5, 2024Updated 2 years ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago