Resources for calling and describing the circulating lineages of SARS-CoV-2
☆38Apr 6, 2021Updated 5 years ago
Alternatives and similar repositories for lineages
Users that are interested in lineages are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆16Oct 29, 2025Updated 11 months ago
- Store of the trained model for pangolin to access.☆55Oct 4, 2022Updated 4 years ago
- Software package for assigning SARS-CoV-2 genome sequences to global lineages.☆455Sep 30, 2026Updated 3 weeks ago
- Rapid analysis and visualization of coronavirus genome variation☆48Apr 2, 2026Updated 6 months ago
- ☆45Feb 13, 2026Updated 8 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.
- A tool for exploring large trees in the browser☆134Oct 7, 2026Updated 2 weeks ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 8 months ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆171Mar 22, 2023Updated 3 years ago
- Masks recombinant regions in an alignment based on ClonalFrameML output☆10May 18, 2018Updated 8 years ago
- Cluster Investigation & Virus Epidemiology Tool☆51Jul 6, 2026Updated 3 months ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- ☆16Oct 2, 2019Updated 7 years ago
- de novo virus assembler of Illumina paired reads☆59May 17, 2021Updated 5 years ago
- Global phylogenies of SARS-CoV-2 sequences☆87Oct 24, 2023Updated 3 years ago
- 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.
- ASMNGS20 - 2020 Conference Details☆15Jun 10, 2022Updated 4 years ago
- A SARS-CoV-2 Mutation Pattern Query Tool☆17Mar 21, 2023Updated 3 years ago
- SURPI☆86May 10, 2016Updated 10 years 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
- Source code for SimBac, a bacterial genome simulator☆14Sep 20, 2024Updated 2 years ago
- ☆18Mar 11, 2024Updated 2 years ago
- Combined clonality and transcriptome scRNAseq clustering method☆11Dec 3, 2022Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆47Sep 3, 2020Updated 6 years ago
- During outbreaks of emerging diseases such as COVID-19, efficiently collecting, sharing, and integrating data is critical to scientific r…☆35Oct 13, 2026Updated last 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.
- ☆23Oct 9, 2026Updated 2 weeks ago
- Ultra rapid nanopore whole genome sequencing pipeline, published in https://www.nature.com/articles/s41587-022-01221-5☆18Jun 28, 2024Updated 2 years ago
- ☆13Jan 29, 2021Updated 5 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆79Dec 5, 2023Updated 2 years ago
- curPrimers is a tool for trimming primer sequences from amplicon based NGS reads☆18May 26, 2025Updated last year
- Lightweight genome browser for microbial genomes☆11Sep 24, 2026Updated 3 weeks ago
- A clustering algorithm that can perform internal validation inspired by forest fire dynamics and self-organized criticality☆18May 18, 2022Updated 4 years ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆92Oct 3, 2026Updated 2 weeks ago
- Private, browser-based placement of genome sequences on phylogenetic trees using UShER.☆11Aug 12, 2026Updated 2 months 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.
- Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.☆323Oct 15, 2026Updated last week
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆67Jun 11, 2026Updated 4 months ago
- Metagenomics Pipeline Repository for January, 2015 NCBI/ADDS Hackathon at NIH☆10Oct 31, 2016Updated 9 years ago
- A COVID-19 CoV Genetics (CG) browser to inform therapeutics development☆26Jan 12, 2026Updated 9 months ago
- An imagemagick-like frontend to Biopython SeqIO☆121Mar 18, 2024Updated 2 years ago
- Unleash the full power of your k-mers!☆25Sep 18, 2026Updated last month
- ImmunoVerse: A pan-cancer atlas of therapeutic T cell targets☆14Updated this week