A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.
☆349Apr 12, 2023Updated 3 years ago
Alternatives and similar repositories for SARS-CoV-2_Sequencing
Users that are interested in SARS-CoV-2_Sequencing are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Nov 8, 2023Updated 2 years ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆171Mar 22, 2023Updated 3 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49May 14, 2026Updated 2 months ago
- The ARTIC fieldbioinformatics pipeline☆134Jul 16, 2026Updated last week
- 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
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Global phylogenies of SARS-CoV-2 sequences☆86Oct 24, 2023Updated 2 years ago
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆118Jun 18, 2026Updated last month
- Software package for assigning SARS-CoV-2 genome sequences to global lineages.☆454Updated this week
- Ultrafast Sample Placement on Existing Trees☆140Jun 1, 2026Updated last month
- ☆51Mar 11, 2022Updated 4 years ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆260Updated this week
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Reference-based consensus creation☆61Updated this week
- viral-ngs: command line tools and wrappers for processing raw viral genomic data☆198Updated this week
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆78Updated this week
- Depth-weighted De-Mixing☆135Updated this week
- "Reads to report" for public health and clinical microbiology☆144Dec 9, 2025Updated 7 months ago
- Cluster Investigation & Virus Epidemiology Tool☆50Jul 6, 2026Updated 3 weeks ago
- An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infect…☆120Oct 27, 2023Updated 2 years ago
- The Zika bioinformatics pipeline☆37Mar 29, 2020Updated 6 years ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆136Updated this week
- Influenza genome analysis Nextflow workflow☆33Sep 15, 2025Updated 10 months ago
- Assembly and intrahost/low-frequency variant calling for viral samples☆165Updated this week
- 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 tool for exploring large trees in the browser☆133Updated this week
- Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction☆254Updated this week
- SURPI☆86May 10, 2016Updated 10 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆40Apr 6, 2026Updated 3 months ago
- Bioinformatics Pipeline and Visualization resources☆64Aug 30, 2024Updated last year
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆25Jul 21, 2026Updated last week
- Nextstrain build for SARS-CoV-2☆1,362Updated this week
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago
- Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.☆32Apr 10, 2026Updated 3 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Python Toolkit for using containerized programs in either Singularity or Docker☆31Mar 19, 2024Updated 2 years ago
- Local Lineage and Monophyly Assessment☆16Aug 5, 2021Updated 4 years ago
- SARS-CoV-2 variant calling and consensus assembly pipeline☆26Sep 18, 2023Updated 2 years ago
- Nextstrain build for mpox virus☆50Updated this week
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆40Feb 20, 2026Updated 5 months ago
- snipit: summarise snps relative to your reference sequence☆178Jan 13, 2026Updated 6 months ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 5 months ago