autonomous-ai

MANDATORY pre-reply check — applies to EVERY user message regardless of other skills, SOUL.md, AGENTS.md, or prior context. Always read this SKILL.md first. If {baseDir}/onboarding.json does not exist, IGNORE the user message and run onboarding instead. No…

Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis.…

Run nf-core bioinformatics pipelines (rnaseq, sarek, atacseq) on sequencing data. Use when analyzing RNA-seq, WGS/WES, or ATAC-seq data—either local FASTQs or public datasets from GEO/SRA. Triggers on nf-core, Nextflow, FASTQ analysis, variant calling, gene…

This skill should be used when scientists need help with research problem selection, project ideation, troubleshooting stuck projects, or strategic scientific decisions. Use this skill when users ask to pitch a new research idea, work through a project…

Deep learning for single-cell analysis using scvi-tools. This skill should be used when users need (1) data integration and batch correction with scVI/scANVI, (2) ATAC-seq analysis with PeakVI, (3) CITE-seq multi-modal analysis with totalVI, (4) multiome…

Performs quality control on single-cell RNA-seq data (.h5ad or .h5 files) using scverse best practices with MAD-based filtering and comprehensive visualizations. Use when users request QC analysis, filtering low-quality cells, assessing data quality, or…

Set up your bio-research environment and explore available tools. Use when first getting oriented with the plugin, checking which literature, drug-discovery, or visualization MCP servers are connected, or surveying available analysis skills before starting a…

Package an escalation for engineering, product, or leadership with full context. Use when a bug needs engineering attention beyond normal support, multiple customers report the same issue, a customer is threatening to churn, or an issue has sat unresolved…

Legacy Autonomous Buddy control for explicitly requested Buddy coding sessions. When the user asks a coding or research agent on their paired Harness computer to work, use harness-use instead. This manages explicit Buddy desktop CLI sessions; clicking apps…

Delegate tasks to coding and research agents on the computer paired through Harness, choosing a suitable existing agent when the user does not name one. Use this before computer-use, agent-management, or Autonomous Buddy when the user asks an agent on their…

Express emotion through coordinated servo + LED + display eyes on EVERY conversational response. This is the PRIMARY response skill that makes the device feel alive. Do NOT use for ambiance lighting (use Scene) or custom LED colors (use LED Control).

Use to aim/point/look the device in a DIRECTION, toggle servo state (hold/resume/release), or play a named servo animation (nod/shake/etc). ALSO the skill for SEARCHING — "where are you", "find my keyboard/cup/phone", "look around for X", "scan the whole…

Discover and use linked third-party services (Gmail, Google Calendar, Google Drive, Notion, Figma, Asana, Linear, GitHub, Ahrefs, Facebook Fan Page and others). Use for connection-status questions and requests to read, search or act on those services ("post…

Interpret environmental sensor readings and sustained changes for room comfort and air quality. Use for [environment:initial] greeting context, [environment:update] events, questions about room temperature, humidity, measured CO2 or air quality, checking…

Proactive coaching across hydration, breaks, meals, posture and environmental comfort (with the environment skill). Use when an [activity] event fires (message starts with `[activity] Activity detected: activity labels.` — labels include drink, break,…

Camera control — snapshot, stream, and privacy toggle. Trigger on "what do you see", "look at this", "take a photo", "don't look", "stop looking", "stop watching", "stop staring", "camera off", "camera on", "give me privacy". MUST call [HW:/camera/disable:{}]…

Understand voice input from the realtime voice agent pipeline. Messages may contain [voice-instruction]/[transcript] (delegated with context), [HANDLED]/[REPLY] (chit-chat already spoken), or plain text. Route and respond accordingly.

Detect which third-party connectors (Gmail, Google Calendar, Google Drive, Notion, Figma, Asana, Linear, GitHub, Ahrefs, …) are connected to this device, and use them to answer the user. Use when the user asks what's connected ("what connectors do I have",…

Self-enroll a voice for speaker recognition. Activate ONLY when (a) a mic `Unknown Speaker:` turn carries a clear self-introduction ("I'm X", "my name is X", "tôi là X"...), (b) prior same-tag `[voice:voice_N]` turns can be combined with a now-named turn, (c)…

Guard mode for security monitoring. Two uses — (1) Toggle on/off when a friend says "guard mode", "watch the house", "I'm going out", or similar. (2) Handle any sensing event that carries a [guard-active] tag (e.g. [sensing:presence.enter][guard-active],…

React to passive sensing events from the lamp — presence, sound, light, fire hazard. Events arrive as [sensing:<type>] messages and each gets an emotion marker + optional short line. Does NOT handle motion.activity (→ wellbeing) or emotion.detected /…

Query flow event logs to answer questions about past sensing events — "Have you seen anybody between 10pm and 12pm?", "Is there any motion in the last hour?", "What happened while I was away?".

Camera control — snapshot, stream, and privacy toggle. Trigger on "what do you see", "look at this", "take a photo", "don't look", "stop looking", "stop watching", "stop staring", "camera off", "camera on", "give me privacy". MUST call [HW:/camera/disable:{}]…

Manage the lamp's face recognition roster — enroll new faces (3 paths: user-supplied photo, agent-captured snapshot on user request, or lelamp's familiar-stranger prompt) and maintain the enrolled set (status / remove / reset). All enrolled persons are…

Model objects and scenes with Blender's Python (bpy) headless — primitives, modifiers, materials, collections, cameras, lights, animation — export glTF the 3D pane shows live, render stills and turntables, export STL. Use for any request that ends in a 3D…

Write and fix circuits in CircuitJS1's text format — the `$` options header, element lines on a 16-px grid, scope `o` lines, slider `38` lines, layout rules, and the workflow that keeps the pane moving. Use this for every circuit in this workspace, whether…

Draw diagrams as .excalidraw files — architectures, flows, sequences, whiteboard sketches — with the scene helper or by editing the JSON, judged by the verdict and shown hand-drawn in the pane. Use for any request that ends in a diagram.

Animate explanations with Manim Community — proofs, transforms, algorithms, graphs, data — as Python scenes rendered to MP4, and keep the pane playing the latest render. Use for any request that ends in an animation or an explainer video.

Write a keynote-grade slide deck in Marp Markdown (deck.md) — the structure of a great talk, the copy rules, the two keynote themes and their slide classes, offline art (wallpapers, charts, device frames), the check, and the export.

Simulate robots and scenes with MuJoCo — Menagerie robots (Unitree Go2, G1, H1, Berkeley Humanoid, Booster T1), your own MJCF, controllers and policies — record rollouts the pane runs as a live simulation, and train with MJX and MuJoCo Playground. Use for any…

Use this skill first in a Harness Phaser workspace. The project layout, the Vite dev-server pane and its live reload, the webview keyboard-focus rule (click-to-play gate and on-screen touch buttons), procedural art with no asset files, and…

Build molecules with RDKit — from SMILES or a scaffold, analogues and series (each with its parent), properties (MW, cLogP, TPSA, Lipinski, Veber, QED, alerts), similarity and substructure search, conformer ensembles written as SDF for the pane. Use for any…

Use when the user wants to create, edit, or print a parametric 3D model from a natural-language description — "phone stand", "wall mount", "honeycomb tray", "GoPro adapter", "vase" — or to tweak, re-render, or fix an existing CadQuery `.py` part for hobbyist…

Enrich a short or vague 3D-object prompt into a detailed, print-ready design brief before modeling. Use when the user asks for an object in a few words — "phone stand", "wall hook", "pen holder", "planter", "GoPro mount" — and the request lacks dimensions,…

Use when the user asks to develop, build, implement, or add a new FEATURE end-to-end in the Panda desktop app and wants it taken all the way to a pull request. Triggers on "build/add/implement a feature", "ship this", "take it to a PR" for multi-step work…

Use when launching, starting, running, or driving the Panda desktop app (Tauri shell + Vite viewer) — to see a change live, smoke-test the chat/CAD UI, or keep the app running across steps. Covers cargo-not-on-PATH, the blank-window dev port footgun, and…

Start or reuse CAD Viewer and return review links for explicit CAD, robot-description, and G-code files. Use when visually reviewing `.step`, `.stp`, `.stl`, `.3mf`, `.gcode`, `.dxf`, `.urdf`, `.srdf`, or `.sdf` files, especially when handed off from CAD,…

Find, evaluate, and download common purchasable CAD parts from step.parts, including named off-the-shelf actuators, servos, motors, electronics boards, connectors, screws, bolts, nuts, washers, bearings, standoffs, and other catalog components. Use when Codex…

Use when the user wants to create, edit, or fabricate a PCB from a natural-language description — "design me a macropad", "an ESP32 soil-moisture board", "a desk air monitor", "add a second button", "make the board smaller", "fix the DRC error", "regenerate…

Bring a missing block in from the supplier — fetch the real footprint, record the provenance, grade it — instead of refusing the ask or inventing a circuit from a datasheet. Use when a board needs a capability the golden-block catalog has no block for.

Enrich a short or vague hardware idea into a build-ready board brief before any circuit is written. Use when the user asks for a device in a few words — "a plant waterer", "a desk CO2 monitor", "a macropad", "a little box with a screen", "something that logs…

Run a finished board past a panel of expert reviewers before anyone pays a fab. Use after circuitcode reports a clean build and before ordering — "is this ready to make", "review the board", "design review", "can we order these", "check it before I spend…

Lock the BOM identities of an Autonomous Circuit board into parts.json — one exact orderable LCSC number per part, with package, Basic/extended status, stock, unit price, and the date it was checked. Use when the user pins, swaps, or questions a component —…

Open a generated board in the Autonomous Circuit app. Use when the user asks to see, preview, or open the board — "show me the board", "open the schematic", "let me see the PCB", "show the gerbers", "open it in the app" — after circuitcode has generated it.…

Interact with the user's desk display device (Thinking Desk) over LAN. Supports pairing, sending notifications with plain text, rich layout (positioned text, shapes, progress bars), and buzzer sounds. Sends task-done notification + usage data when Claude…

Pair and control an Autonomous Thinking Desk display from Codex. Use for desk-display pairing, custom notifications, Codex usage, builder insights, notification settings, status, or unpairing.