Programmatically interact with the GISAID database.
☆83Aug 5, 2025Updated 11 months ago
Alternatives and similar repositories for GISAIDR
Users that are interested in GISAIDR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated last year
- 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
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 7 months ago
- Reproducible workflow for SARS-CoV-2 recombinant sequence detection.☆18May 15, 2023Updated 3 years ago
- Tools for analyzing and comparing SARS-CoV-2 phylogenies☆10Nov 21, 2020Updated 5 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.
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- RSV-A lineage definitions and proposals☆16Nov 9, 2025Updated 8 months ago
- Systematic ProtEin AnnotatoR☆19Sep 20, 2025Updated 10 months ago
- A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV…☆37Updated this week
- ☆51Mar 11, 2022Updated 4 years ago
- A tool for exploring large trees in the browser☆133Jul 15, 2026Updated last week
- Official place for proposals and details around monkeypox virus lineage designations☆23Jul 7, 2026Updated 2 weeks ago
- Estimate growth rate advantage of SARS-CoV2 variants of concern based on international genomic surveillance data and multinomial spline f…☆25Apr 24, 2023Updated 3 years ago
- Retrieve HIVdb algorithm as XML and apply locally to HIV sequences☆14Jun 27, 2026Updated 3 weeks ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Phylogenetic tree library for JavaScript/Node.js☆39Nov 16, 2022Updated 3 years ago
- SARS-CoV-2 genome data analysis☆10Dec 6, 2025Updated 7 months ago
- 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…☆91Nov 8, 2023Updated 2 years ago
- Viral (meta)-genome assembly pipeline.☆23Updated this week
- Consensus sequences for each Pango lineage☆23Jun 27, 2025Updated last year
- High-performance analytical database for sequence alignment data☆19Updated this week
- ☆21Apr 2, 2025Updated last year
- Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain☆18Nov 24, 2025Updated 8 months 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.
- ☆15Mar 12, 2026Updated 4 months ago
- Racmacs R package for performing antigenic cartography☆24Jul 8, 2026Updated 2 weeks ago
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago
- Scrapping tool for GISAID data regarding SARS-CoV-2☆42May 22, 2023Updated 3 years ago
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Jun 22, 2022Updated 4 years ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆260Updated this week
- Random utility scripts for genomics data☆12Feb 22, 2021Updated 5 years ago
- Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates☆22Nov 8, 2024Updated last year
- Download all EpiCoV sequcnes from GISAID☆32Jun 21, 2022Updated 4 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.
- Depth-weighted De-Mixing☆135Updated this week
- A selenium spider for GISAID☆11Apr 10, 2023Updated 3 years ago
- The ARTIC fieldbioinformatics pipeline☆134Jul 16, 2026Updated last week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated last month
- A Nextflow pipeline to align, merge, and organize large PhIP-Seq datasets☆13Feb 7, 2025Updated last year
- Global phylogenies of SARS-CoV-2 sequences☆86Oct 24, 2023Updated 2 years ago
- Workflow for SARS-CoV-2 genome Assembly at FioCruz/IAM☆28Feb 6, 2024Updated 2 years ago