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bio-batch-downloads

Download large datasets from NCBI efficiently using EPost, history server, batching, rate limiting, and retry logic.

Skill by BioTender-max

IndexedNOASSERTION★ 206
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Install

Works with Claude Code, Claude apps, Codex, Cursor, Gemini CLI, GitHub Copilot, VS Code, OpenCode, Goose, Windsurf. Read the repository before you give any tool access to your data.

npx agentmarket install skill/biotender-max-bio-batch-downloads

Asks which of your tools to add it to (Claude Code, Codex, Cursor, VS Code, Windsurf, Gemini CLI, Claude Desktop) and shows the change first. See https://agentmart.dev/cli.

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About

Download large datasets from NCBI efficiently using EPost, history server, batching, rate limiting, and retry logic. Use when bulk-fetching tens of thousands of sequences, pulling all results of a large ESearch, designing reproducible pipelines, comparing E-utilities to NCBI Datasets v2 CLI, or implementing checksum-validated downloads. Encodes WebEnv TTL (~8h), EPost 200-ID limit, retmax caps, parallelization design, and integrity verification.

Use cases: design, backend

Reviews

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Permissions

What this skill can do and what it asks for, from its SKILL.md. Checked Oct 25, 2026.

Tools
No tools found
Secrets
None asked for
Install scripts
None found
Runs as
Python package

Network hosts it talks to 1

  • codeload.github.com · found in install command

Files it touches

  • ~/.claude/skills/bio-batch-downloads

What's inside

Skill name
bio-batch-downloads
Description
Download large datasets from NCBI efficiently using EPost, history server, batching, rate limiting, and retry logic. Use when bulk-fetching tens of thousands of sequences, pulling all results of a large ESearch, designing reproducible pipelines, comparing E-utilities to NCBI Datasets v2 CLI, or implementing checksum-validated downloads. Encodes WebEnv TTL (~8h), EPost 200-ID limit, retmax caps, parallelization design, and integrity verification.
License
NOASSERTION
Instructions
306 lines in SKILL.md · view on GitHub

Before installing

  • Ships executable scripts
  • Instructions call the network

Agent Skills spec issues

  • name: "bio-batch-downloads" does not match folder "batch-downloads"

Files (5)

  • SKILL.md
  • batch_by_ids.py · examples/
  • batch_fasta.py · examples/
  • robust_download.py · examples/
  • usage-guide.md

The license isn't open source, so the instructions aren't shown here. Read SKILL.md on GitHub

More from BioTender-max/awesome-bio-agent-skills

Signals

Stars
206
Forks
36
Open issues
1
Last commit (this folder)
May 25, 2026 (5 months ago)
Last release
Jul 1, 2026 (3 months ago)

From GitHub (fetched Oct 24, 2026).

Details

License
NOASSERTION
Repository
github.com/BioTender-max/awesome-bio-agent-skills
Website
biotender-max.github.io/awesome-bio-agent-skills/
First seen
Oct 24, 2026
Last checked
Oct 24, 2026
Source
GitHubgithub-graphql

More from BioTender-max

Cite this page

bio-batch-downloads skill. Agent Mart. https://agentmart.dev/skills/biotender-max-bio-batch-downloads (last updated 2026-10-24)