kblin/ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers observed · 2026-08-28
Health v2 · maintenance only
57/100
- Activity 76
- Release rhythm 8
- Longevity 100
How is this computed?
round(0.45*activity + 0.35*rhythm + 0.20*longevity); archived -> min(score, 10) — computed 2026-09-02. Adoption (stars, forks) is never an input.
- gap_med: n/a
- age_days: 3774
- days_rel: n/a
- days_push: 148
- n_releases_24m: 0
Adoption not part of the score
1083 stars · 176 forks observed · 2026-08-28
What it is AI-extracted, prompt v1, taxonomy v1, 2026-08-30, confidence not recorded
A Python command-line tool for downloading bacterial, fungal, viral, and other genome files from NCBI's FTP servers in GenBank, FASTA, and other formats. It supports filtering by group, section, format, and parallel downloads.
Use cases
- download all bacterial refseq genomes from ncbi
- fetch fungal genomes in genbank format
- download viral genomes as fasta files
- bulk download genome assemblies for building a kraken database
- mirror ncbi refseq genome data locally
- download genomes in parallel for a bioinformatics pipeline
When to choose
- you need to bulk-download genomes from NCBI's restructured FTP layout
- you want format, section, and taxonomic group filtering with parallel downloads
- you want a pip or conda (bioconda) installable Python 3 tool
When to avoid
- you need a GUI or interactive genome browser
- you need to download non-genome NCBI data such as SRA reads or taxonomy dumps
- you are stuck on Python 2 or an unsupported Python version
Facets
cli-tool · maturity active
cli developer-tools bioinformatics python cli windows cross-platform ncbi genomics genome-download refseq genbank bioinformatics fasta biology command-line data-engineering linux macos
2 sources
- readme: https://github.com/kblin/ncbi-genome-download · fetched 2026-08-28 · aab72317b1d8
- registry_pypi: https://pypi.org/pypi/ncbi-genome-download/json · fetched 2026-08-29 · c21e2ca45f26
Member repositories
| Repository | Role | Health v2 |
|---|---|---|
| kblin/ncbi-genome-download | main | 57 |
For agents
markdown · JSON · MCP: product_card(name="kblin/ncbi-genome-download")
Data as of 2026-08-30T08:39:29.467469+00:00 · Report a problem