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Babysitter pubmed-literature-miner

Biomedical literature mining using PubMed/MEDLINE for systematic review support

install
source · Clone the upstream repo
git clone https://github.com/a5c-ai/babysitter
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/a5c-ai/babysitter "$T" && mkdir -p ~/.claude/skills && cp -r "$T/library/specializations/domains/science/scientific-discovery/skills/pubmed-literature-miner" ~/.claude/skills/a5c-ai-babysitter-pubmed-literature-miner && rm -rf "$T"
manifest: library/specializations/domains/science/scientific-discovery/skills/pubmed-literature-miner/SKILL.md
tags
#pubmed-search#systematic-review#pico-analysis#literature-screening#citation-deduplication
source content

PubMed Literature Miner

Purpose

Provides biomedical literature mining capabilities using PubMed/MEDLINE for systematic review support and PICO framework analysis.

Capabilities

  • MeSH term-based search
  • PICO element extraction
  • Abstract screening automation
  • Citation deduplication
  • PRISMA flow diagram data generation
  • Full-text retrieval coordination

Usage Guidelines

  1. MeSH Terms: Use controlled vocabulary for precise searches
  2. PICO Framework: Structure searches around population, intervention, comparison, outcome
  3. Screening: Apply inclusion/exclusion criteria systematically
  4. PRISMA Compliance: Generate required flow diagram data

Tools/Libraries

  • Biopython
  • PyMed
  • NCBI E-utilities