ARTIC SARS-CoV-2 workflow and reporting
☆52Apr 25, 2025Updated last year
Alternatives and similar repositories for wf-artic
Users that are interested in wf-artic are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The ARTIC fieldbioinformatics pipeline☆136Jul 16, 2026Updated last month
- SARS-CoV-2 workflow for nanopore sequence data☆42Updated this week
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆92Nov 8, 2023Updated 2 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆16Jun 26, 2018Updated 8 years ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 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.
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆171Mar 22, 2023Updated 3 years ago
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated last year
- ☆22Jun 1, 2026Updated 2 months ago
- A message queue for genomic surveillance☆20Oct 14, 2021Updated 4 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆42Apr 6, 2026Updated 4 months ago
- a tool for designing primer panels for multiplex PCR.☆111Feb 5, 2024Updated 2 years ago
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆43Aug 6, 2026Updated last week
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆25Updated this week
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Updated this week
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Nextstrain build for mpox virus☆50Aug 3, 2026Updated 2 weeks ago
- ☆24Feb 2, 2026Updated 6 months ago
- A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbio…☆10Jan 23, 2026Updated 6 months ago
- Python bindings to spoa☆22Dec 3, 2025Updated 8 months ago
- ☆27Aug 2, 2023Updated 3 years ago
- ☆18Mar 11, 2024Updated 2 years ago
- ☆10Apr 16, 2025Updated last year
- Depth-weighted De-Mixing☆134Updated this week
- Official place for proposals and details around monkeypox virus lineage designations☆23Jul 7, 2026Updated last month
- 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.
- Informal summaries of notable SARS-CoV-2 lineages☆111Jun 1, 2026Updated 2 months ago
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆62Mar 23, 2023Updated 3 years ago
- Nextstrain build for dengue virus☆16Aug 3, 2026Updated 2 weeks ago
- Assembly and intrahost/low-frequency variant calling for viral samples☆167Updated this week
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆33Jun 10, 2026Updated 2 months ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 6 months 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
- ☆44Mar 13, 2026Updated 5 months ago
- ☆12Feb 15, 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.
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆261Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 2 months ago
- SC2 variant detection and composition pipeline☆19Jun 12, 2026Updated 2 months ago
- Assemble bacterial isolate genomes from Nanopore reads☆136Jan 22, 2025Updated last year
- Ultrafast Sample Placement on Existing Trees☆140Jun 1, 2026Updated 2 months ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 5 months ago
- quality filtering tool for long reads☆412Sep 17, 2025Updated 11 months ago