mjlab

Python implementation rules for Miller-Jensen lab analysis code — uv environments, ruff, portable paths, and notebook-vs-script discipline. TRIGGER when editing .py files, writing analysis scripts, structuring a Python project, or refactoring notebook code into reusable modules in a Miller-Jensen lab repository.

Search the scientific literature for the Miller-Jensen lab using public REST APIs (PubMed/OpenAlex/Crossref/Europe PMC/bioRxiv/Semantic Scholar/arXiv/Unpaywall) and optionally Ai2 Asta. TRIGGER when the user asks to find papers on a topic, do a quick literature lookup, locate a DOI or PMID, get the latest preprints, or ground a claim in real published work. For a reproducible local corpus snapshot, see [local-lit-search](../local-lit-search/SKILL.md).

Build and query a local SQLite FTS5 corpus of the scientific literature for a Miller-Jensen lab project — interview-driven PubMed pulls, Semantic Scholar citation enrichment, PMC full-text fetch with download safeguards, and grounded `[PMID:…]` citations. TRIGGER when the user asks to build a literature corpus, write a manuscript intro that needs stable citations, do a paper-replication lit review, or get reproducible answers across sessions on a specific research question. For ad-hoc / single-query lookups, prefer [literature-search](../literature-search/SKILL.md).

Agent behavior for git and GitHub in Miller-Jensen lab work — when to branch, what to commit, what to ignore, when to push back on big files, and how to handle the lab org `miller-jensen-lab`. TRIGGER when working in a git repository whose origin is under `miller-jensen-lab/*` OR a lab member's personal account doing lab-related work, when running `git`, `gh`, or any commit/branch/PR/repo-creation flow on lab code.

Use the Zotero local HTTP API (and Zotero Web API where needed) to search the user's reference library, add references by DOI, export BibTeX or CSL-formatted bibliographies, and manage collections and tags from within an analysis or manuscript repository. TRIGGER when the user mentions Zotero, citations, references, BibTeX, `.bib` files, DOIs in the context of citing a paper, or a manuscript draft asking for "the right paper for this claim."