Wytamma / GISAIDRView external linksLinks
Programmatically interact with the GISAID database.
☆80Aug 5, 2025Updated 6 months ago
Alternatives and similar repositories for GISAIDR
Users that are interested in GISAIDR are comparing it to the libraries listed below
Sorting:
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated 9 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 3 years ago
- app to collapse Pango lineages for reporting☆12Dec 9, 2025Updated 2 months ago
- Systematic ProtEin AnnotatoR☆19Sep 20, 2025Updated 4 months ago
- A tool for exploring large trees in the browser☆119Feb 4, 2026Updated last week
- Sequence Indexing engine for Large Omics data☆18Updated this week
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Nov 8, 2023Updated 2 years ago
- Tools for analyzing and comparing SARS-CoV-2 phylogenies☆10Nov 21, 2020Updated 5 years ago
- Reproducible workflow for SARS-CoV-2 recombinant sequence detection.☆18May 15, 2023Updated 2 years 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…☆37Feb 4, 2026Updated last week
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- Official place for proposals and details around monkeypox virus lineage designations☆23Dec 9, 2025Updated 2 months ago
- Racmacs R package for performing antigenic cartography☆24Jun 27, 2024Updated last year
- Phylogenetic tree library for JavaScript/Node.js☆37Nov 16, 2022Updated 3 years ago
- Estimate growth rate advantage of SARS-CoV2 variants of concern based on international genomic surveillance data and multinomial spline f…☆25Apr 24, 2023Updated 2 years ago
- ☆50Mar 11, 2022Updated 3 years ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- ☆20Apr 2, 2025Updated 10 months ago
- Viral (meta)-genome assembly pipeline.☆17Jan 27, 2026Updated 2 weeks ago
- An API, a query engine, and a database schema for genomic sequences; currently with a focus on SARS-CoV-2☆29Updated this week
- a tool for designing primer panels for multiplex PCR.☆106Feb 5, 2024Updated 2 years ago
- The ARTIC fieldbioinformatics pipeline☆128Jan 7, 2026Updated last month
- Download all EpiCoV sequcnes from GISAID☆32Jun 21, 2022Updated 3 years ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆250Feb 5, 2026Updated last week
- baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…☆116Updated this week
- Global phylogenies of SARS-CoV-2 sequences☆85Oct 24, 2023Updated 2 years ago
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆114Jan 9, 2026Updated last month
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆170Mar 22, 2023Updated 2 years ago
- ☆25Jun 25, 2024Updated last year
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆59Mar 23, 2023Updated 2 years ago
- ☆12Feb 15, 2023Updated 2 years ago
- Depth-weighted De-Mixing☆127Feb 8, 2026Updated last week
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Jun 22, 2022Updated 3 years ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆41Feb 6, 2026Updated last week
- Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates☆21Nov 8, 2024Updated last year
- Real time and remote MCMC trace monitoring with BEASTIARY.☆21May 10, 2025Updated 9 months ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- Pyro models of SARS-CoV-2 variants☆77Jul 26, 2024Updated last year
- SARS-CoV-2 genome data analysis☆10Dec 6, 2025Updated 2 months ago