Why Zotero is the Researcher’s Default
Zotero is the reference manager I recommend without hesitation. It’s free, open-source, and has no meaningful competition for academic use cases.
The workflow that changed how I research:
- One-click capture from browser (journal page → saves paper, PDF, and metadata automatically)
- Better BibTeX plugin generates clean, stable citation keys (
zeghlache2024arxiv) - Obsidian Citations plugin pulls all your metadata into your note-taking app
- Word / LibreOffice integration for those who don’t use LaTeX
Essential Plugins
- Better BibTeX — stable, customisable citation keys, auto-exports
.bibfiles - ZotFile — renames and organises PDFs automatically
- Obsidian Integration (Citations plugin) — pull paper metadata into Obsidian notes
- ResearchRabbit — discover related papers from your Zotero library
Two Resources to Get Started
Article: Complete Setup Guide — walks through the Zotero + Better BibTeX + Obsidian pipeline from scratch. Takes about 30 minutes to set up and saves you hours every month.
Video: Markdown + Pandoc with Zotero citations — shows how to write full academic papers in Markdown where citations are [@zeghlache2024arxiv] — Pandoc resolves them into a properly formatted bibliography in any citation style.
LaTeX Integration
Better BibTeX can auto-export your entire Zotero library to a .bib file. Reference it in your LaTeX preamble with \bibliography{~/Zotero/my-library} and Zotero manages the database for you. Never manually edit a .bib file again.