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 rebuilds.
☆37Jun 10, 2026Updated this week
Alternatives and similar repositories for ncov-ingest
Users that are interested in ncov-ingest are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Nextstrain build for mpox virus☆50Updated this 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
- High-performance analytical database for sequence alignment data☆19Updated this week
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆259May 26, 2026Updated 2 weeks ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years 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.
- ☆25Jun 25, 2024Updated last year
- Tools for analyzing and comparing SARS-CoV-2 phylogenies☆10Nov 21, 2020Updated 5 years ago
- A tool for exploring large trees in the browser☆133May 7, 2026Updated last month
- An open-source software package to power microbial genomic databases☆72Updated this week
- Nextstrain build for dengue virus☆14Updated this week
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated last year
- Programmatically interact with the GISAID database.☆82Aug 5, 2025Updated 10 months ago
- Data and scripts for Zika virus tutorial☆10Oct 14, 2025Updated 8 months ago
- Nextstrain build for Zika virus☆10Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago
- US Health and Human Services scientific funding visualizations☆17Updated this week
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated last year
- ☆12Feb 15, 2023Updated 3 years ago
- SARS-CoV-2 genome data analysis☆10Dec 6, 2025Updated 6 months ago
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆37Updated this week
- Official place for proposals and details around monkeypox virus lineage designations☆23Updated this week
- Metagenomics Pipeline Repository for January, 2015 NCBI/ADDS Hackathon at NIH☆10Oct 31, 2016Updated 9 years ago
- ☆13Nov 1, 2022Updated 3 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- ☆16Oct 29, 2025Updated 7 months ago
- Projects on COVID-19 topic of genomic sequencing - mostly DataViz☆59Updated this week
- RethinkDB database to support real-time virus analysis☆35Jun 4, 2026Updated last week
- Genomic Assemblies Merger for NGS☆26Nov 10, 2023Updated 2 years ago
- Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain☆18Nov 24, 2025Updated 6 months ago
- Store of the trained model for pangolin to access.☆55Oct 4, 2022Updated 3 years ago
- Ultrafast Sample Placement on Existing Trees☆140Jun 1, 2026Updated 2 weeks ago
- ☆11Aug 18, 2024Updated last year
- ☆51Mar 11, 2022Updated 4 years 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.
- Simple Manipulation Of Trees☆14Aug 16, 2025Updated 9 months ago
- A web platform to detect and analyze variants of SARS-CoV-2☆61Updated this week
- Documentation for analyzing SARS-Cov2 samples.☆12Jun 4, 2020Updated 6 years ago
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆12Dec 2, 2024Updated last year
- Multiple sequence alignment browser☆11Dec 12, 2022Updated 3 years ago
- python simulation interface for molecular modeling. To cite this software publication: https://www.sciencedirect.com/science/article/pii/…☆13Aug 24, 2016Updated 9 years ago
- Web app for visualizing pathogen evolution☆311Updated this week