.dotfiles

Interview the user relentlessly about a plan or design until reaching shared understanding, collecting decisions without performing implementation. Use when user wants to stress-test a plan, get grilled on their design, or mentions "grill me".

Triage TI-Toolbox telemetry error clusters from TI-toolbox-stats, using the artifact-first workflow to classify BigQuery-derived failures, compare them against current TI-Toolbox releases, and only open or close GitHub issues after review.

Use the global docx-tools CLI for Microsoft Word .docx writing workflows, including building documents from JSON specs, reading .docx files back to specs, patching specs, handling comments, adding authors/figures, and parsing BibTeX.

BIDS (Brain Imaging Data Structure) conventions for organizing neuroimaging datasets. Use when creating, reading, validating, or navigating BIDS-compliant directory trees, file names, metadata sidecars, or derivatives.

Production code quality standards and review checklist. Use when writing or reviewing code.

EEGLAB toolbox reference for EEG/MEG processing in MATLAB. Use when writing or modifying EEGLAB scripts, working with the EEG struct, ICA, clean_rawdata, ICLabel, pop_* functions, STUDY designs, or BIDS-EEG import. Covers the EEG structure, preprocessing pipeline, plugin API, and function lookup.

Practical engineering discipline for agentic coding. Use when planning or implementing code changes to keep edits simple, scoped, evidence-driven, and verified.

Git collaboration playbook for agents. Use when performing or advising on git operations, drafting commits, branch names, PR/MR descriptions, issue reports, code review comments, release notes, changelog entries, or GitHub/GitLab discussion posts.

Create and manage production Grafana dashboards for real-time visualization of system and application metrics. Use when building monitoring dashboards, visualizing metrics, or creating operational observability interfaces.

Academic literature management for research papers. Searches local PDFs and the web (OpenAlex, arXiv, Google Scholar), downloads open-access papers, renames files consistently (Author_Year_ShortTitle.pdf), and produces strategic summaries in literature.md oriented toward how each paper will be cited in the user's manuscript. Use when adding papers, reviewing literature gaps, or preparing citation lists.

Run MATLAB scripts from the terminal in batch mode (no GUI, no splash screen). Use when the user wants to execute .m files or MATLAB commands.

Create, configure, or review Model Context Protocol servers and client MCP configuration. Use for MCP tool design, mcpServers JSON, Codex TOML generation, auth boundaries, smoke tests, and agent tool safety.

Medical neuroimaging patterns for NIfTI, DICOM, SimpleITK, and nibabel. Use when working with brain imaging data, registration, coordinate transforms, or volume I/O.

Parent-agent orchestration rules for Pi subagents: when to scout, research, plan, delegate, review, or ask the user. Use for complex tasks, multi-file changes, ambiguous requirements, or parallel research/implementation.

Python production code patterns and anti-patterns. Use when writing Python code.

Scientific Python patterns for NumPy, SciPy, and matplotlib in medical imaging and neuroscience. Use when writing numerical code, signal processing, or scientific visualizations.

Security review checklist for code, agent tools, MCP servers, scripts, and configuration. Use when reviewing auth, secrets, filesystem/network access, injection risk, dependencies, or prompt-injection exposure.

Web research for neuroimaging documentation, SimpleITK, nibabel, napari, BIDS specs, and neuroscience methods. TRIGGER when user asks to look up docs, find API references, or research neuroimaging methods.

Create or improve reusable agent skills. Use when the user wants to write a new skill, refactor an existing one, or review skill quality. Covers frontmatter, structure, invocation control, content lifecycle, and the unified dotfiles skills workflow.