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 5 months ago
- Store of the trained model for pangolin to access.☆55Oct 4, 2022Updated 3 years ago
- Software package for assigning SARS-CoV-2 genome sequences to global lineages.☆451Apr 7, 2026Updated last week
- A tool for exploring large trees in the browser☆131Updated this week
- Rapid analysis and visualization of coronavirus genome variation☆48Apr 2, 2026Updated 2 weeks ago
- 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.
- ☆44Feb 13, 2026Updated 2 months ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 2 months ago
- Masks recombinant regions in an alignment based on ClonalFrameML output☆10May 18, 2018Updated 7 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Jun 17, 2025Updated 10 months ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆170Mar 22, 2023Updated 3 years ago
- ☆16Oct 2, 2019Updated 6 years ago
- ASMNGS20 - 2020 Conference Details☆15Jun 10, 2022Updated 3 years ago
- Global phylogenies of SARS-CoV-2 sequences☆85Oct 24, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Source code for SimBac, a bacterial genome simulator☆14Sep 20, 2024Updated last year
- SURPI☆86May 10, 2016Updated 9 years ago
- ☆17Mar 11, 2024Updated 2 years ago
- A SARS-CoV-2 Mutation Pattern Query Tool☆17Mar 21, 2023Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆46Sep 3, 2020Updated 5 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 3 years ago
- Unleash the full power of your k-mers!☆24Jan 13, 2026Updated 3 months ago
- Combined clonality and transcriptome scRNAseq clustering method☆11Dec 3, 2022Updated 3 years ago
- ☆18Mar 20, 2026Updated 3 weeks ago
- 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.
- A scalable bacterial genome assembly, annotation and analysis pipeline☆77Dec 5, 2023Updated 2 years ago
- During outbreaks of emerging diseases such as COVID-19, efficiently collecting, sharing, and integrating data is critical to scientific r…☆35Mar 25, 2026Updated 3 weeks ago
- Northern Arizona SNP Pipeline☆20Oct 29, 2024Updated last year
- curPrimers is a tool for trimming primer sequences from amplicon based NGS reads☆17May 26, 2025Updated 10 months ago
- An imagemagick-like frontend to Biopython SeqIO☆117Mar 18, 2024Updated 2 years ago
- Private, browser-based placement of genome sequences on phylogenetic trees using UShER.☆11Nov 22, 2024Updated last year
- Ultra rapid nanopore whole genome sequencing pipeline, published in https://www.nature.com/articles/s41587-022-01221-5☆18Jun 28, 2024Updated last year
- ☆13Jan 29, 2021Updated 5 years ago
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 4 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.
- A clustering algorithm that can perform internal validation inspired by forest fire dynamics and self-organized criticality☆18May 18, 2022Updated 3 years 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 3 months ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆66May 5, 2023Updated 2 years ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- ☆13Updated this week