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MDhewei
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track-lab-publications

Track a PI's publications from PubMed and Europe PMC into a structured report.

64|12|Updated Apr 7, 2026
Search Tags:#citations#publications#pubmed#mesh-terms#europepmc#coauthorship
One-click install
npx skills add https://github.com/MDhewei/bioinfor-claw --skill track-lab-publications
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: track-lab-publications
Source: https://github.com/MDhewei/bioinfor-claw/tree/main/lab-search-and-track/track-lab-publications
Command: npx skills add https://github.com/MDhewei/bioinfor-claw --skill track-lab-publications

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, matplotlib, numpy, pandas, networkx, and includes scripts (resource) components.

What problem does it solve?

Researchers and labs struggle to keep up with the publication output of a PI or research group, manually collecting papers, extracting metadata, and synthesizing impact into a usable summary.

Core Features & Use Cases

  • Automated literature tracking: fetches recent PubMed and Europe PMC publications for a given PI and institution.
  • Meta-analysis of research themes and impact: extracts MeSH terms, keywords, and citation counts to reveal topics and collaboration patterns.
  • Outputs for reporting: generates a structured TSV/JSON dataset, a markdown lab report, and visualization plots (timeline, keyword distribution, co-author network).

Quick Start

Provide a PI name and optional institution, specify a date range, and run the skill to fetch publications and generate a formatted report with visuals.

Frequently Asked Questions about track-lab-publications

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I track a PI's publications from PubMed and Europe PMC?▼

Track a PI's publications by providing their name and institution to query PubMed and Europe PMC APIs. The skill extracts metadata, MeSH terms, and citation counts, then outputs a structured TSV dataset, markdown report, and visualizations.

Can I generate a lab report with co-authorship networks and publication trends?▼

Yes, generate a lab report with co-authorship networks and publication trends by extracting metadata and MeSH terms. The skill computes collaboration patterns and outputs a markdown report alongside timeline plots and keyword distribution visualizations.

What's the best way to extract MeSH terms and citation counts for a research group?▼

Extract MeSH terms and citation counts by querying PubMed eUtils and Europe PMC public APIs for a specified PI. The skill processes the bibliographic data to reveal research themes and computes trends, outputting results as publications.tsv and lab_report.md.

Do I need to specify a date range to fetch recent publications for a PI?▼

Specifying a date range is optional but recommended to filter recent publications accurately. Provide a PI name and optional institution, define the date range, and the skill fetches matching records from PubMed and Europe PMC to generate the report.

Does this publication tracking skill work with pandas and matplotlib for data visualization?▼

Yes, the skill uses pandas for data manipulation and matplotlib for generating publication visuals. It relies on these dependencies alongside networkx and numpy to compute collaboration networks and produce timeline, keyword, and co-author plots.

What limitations exist when fetching publication metadata from public APIs?▼

Limitations include dependency on public API availability and rate limits for PubMed eUtils and Europe PMC. Citation counts are fetched optionally, and the accuracy of publication tracking depends on the PI name and institution matching records in the bibliographic databases.

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