better-dsh 0.2.5-c → 0.2.5-e

package/docs/80_upstream-docs-and-skills/hermes-dev-skill/src/docs/user-guide/skills/optional/health/health-neuroskill-bci.md

@@ -1,470 +0,0 @@
----
-title: "Neuroskill Bci — Use live BCI cognitive and mood state from NeuroSkill"
-sidebar_label: "Neuroskill Bci"
-description: "Use live BCI cognitive and mood state from NeuroSkill"
----
-
-{/* This page is auto-generated from the skill's SKILL.md by website/scripts/generate-skill-docs.py. Edit the source SKILL.md, not this page. */}
-
-# Neuroskill Bci
-
-Use live BCI cognitive and mood state from NeuroSkill.
-
-## Skill metadata
-
-| | |
-|---|---|
-| Source | Optional — install with `hermes skills install official/health/neuroskill-bci` |
-| Path | `optional-skills/health\neuroskill-bci` |
-| Version | `1.0.0` |
-| Author | Hermes Agent + Nous Research |
-| License | MIT |
-| Platforms | linux, macos, windows |
-| Tags | `BCI`, `neurofeedback`, `health`, `focus`, `EEG`, `cognitive-state`, `biometrics`, `neuroskill` |
-
-## Reference: full SKILL.md
-
-:::info
-The following is the complete skill definition that Hermes loads when this skill is triggered. This is what the agent sees as instructions when the skill is active.
-:::
-
-# NeuroSkill BCI Integration
-
-Connect Hermes to a running [NeuroSkill](https://neuroskill.com/) instance to read
-real-time brain and body metrics from a BCI wearable. Use this to give
-cognitively-aware responses, suggest interventions, and track mental performance
-over time.
-
-> **⚠️ Research Use Only** — NeuroSkill is an open-source research tool. It is
-> NOT a medical device and has NOT been cleared by the FDA, CE, or any regulatory
-> body. Never use these metrics for clinical diagnosis or treatment.
-
-See `references/metrics.md` for the full metric reference, `references/protocols.md`
-for intervention protocols, and `references/api.md` for the WebSocket/HTTP API.
-
----
-
-## Prerequisites
-
-- **Node.js 20+** installed (`node --version`)
-- **NeuroSkill desktop app** running with a connected BCI device
-- **BCI hardware**: Muse 2, Muse S, or OpenBCI (4-channel EEG + PPG + IMU via BLE)
-- `npx neuroskill status` returns data without errors
-
-### Verify Setup
-```bash
-node --version                    # Must be 20+
-npx neuroskill status             # Full system snapshot
-npx neuroskill status --json      # Machine-parseable JSON
-```
-
-If `npx neuroskill status` returns an error, tell the user:
-- Make sure the NeuroSkill desktop app is open
-- Ensure the BCI device is powered on and connected via Bluetooth
-- Check signal quality — green indicators in NeuroSkill (≥0.7 per electrode)
-- If `command not found`, install Node.js 20+
-
----
-
-## CLI Reference: `npx neuroskill <command>`
-
-All commands support `--json` (raw JSON, pipe-safe) and `--full` (human summary + JSON).
-
-| Command | Description |
-|---------|-------------|
-| `status` | Full system snapshot: device, scores, bands, ratios, sleep, history |
-| `session [N]` | Single session breakdown with first/second half trends (0=most recent) |
-| `sessions` | List all recorded sessions across all days |
-| `search` | ANN similarity search for neurally similar historical moments |
-| `compare` | A/B session comparison with metric deltas and trend analysis |
-| `sleep [N]` | Sleep stage classification (Wake/N1/N2/N3/REM) with analysis |
-| `label "text"` | Create a timestamped annotation at the current moment |
-| `search-labels "query"` | Semantic vector search over past labels |
-| `interactive "query"` | Cross-modal 4-layer graph search (text → EXG → labels) |
-| `listen` | Real-time event streaming (default 5s, set `--seconds N`) |
-| `umap` | 3D UMAP projection of session embeddings |
-| `calibrate` | Open calibration window and start a profile |
-| `timer` | Launch focus timer (Pomodoro/Deep Work/Short Focus presets) |
-| `notify "title" "body"` | Send an OS notification via the NeuroSkill app |
-| `raw '{json}'` | Raw JSON passthrough to the server |
-
-### Global Flags
-| Flag | Description |
-|------|-------------|
-| `--json` | Raw JSON output (no ANSI, pipe-safe) |
-| `--full` | Human summary + colorized JSON |
-| `--port <N>` | Override server port (default: auto-discover, usually 8375) |
-| `--ws` | Force WebSocket transport |
-| `--http` | Force HTTP transport |
-| `--k <N>` | Nearest neighbors count (search, search-labels) |
-| `--seconds <N>` | Duration for listen (default: 5) |
-| `--trends` | Show per-session metric trends (sessions) |
-| `--dot` | Graphviz DOT output (interactive) |
-
----
-
-## 1. Checking Current State
-
-### Get Live Metrics
-```bash
-npx neuroskill status --json
-```
-
-**Always use `--json`** for reliable parsing. The default output is colorized
-human-readable text.
-
-### Key Fields in the Response
-
-The `scores` object contains all live metrics (0–1 scale unless noted):
-
-```jsonc
-{
-  "scores": {
-    "focus": 0.70,           // β / (α + θ) — sustained attention
-    "relaxation": 0.40,      // α / (β + θ) — calm wakefulness
-    "engagement": 0.60,      // active mental investment
-    "meditation": 0.52,      // alpha + stillness + HRV coherence
-    "mood": 0.55,            // composite from FAA, TAR, BAR
-    "cognitive_load": 0.33,  // frontal θ / temporal α · f(FAA, TBR)
-    "drowsiness": 0.10,      // TAR + TBR + falling spectral centroid
-    "hr": 68.2,              // heart rate in bpm (from PPG)
-    "snr": 14.3,             // signal-to-noise ratio in dB
-    "stillness": 0.88,       // 0–1; 1 = perfectly still
-    "faa": 0.042,            // Frontal Alpha Asymmetry (+ = approach)
-    "tar": 0.56,             // Theta/Alpha Ratio
-    "bar": 0.53,             // Beta/Alpha Ratio
-    "tbr": 1.06,             // Theta/Beta Ratio (ADHD proxy)
-    "apf": 10.1,             // Alpha Peak Frequency in Hz
-    "coherence": 0.614,      // inter-hemispheric coherence
-    "bands": {
-      "rel_delta": 0.28, "rel_theta": 0.18,
-      "rel_alpha": 0.32, "rel_beta": 0.17, "rel_gamma": 0.05
-    }
-  }
-}
-```
-
-Also includes: `device` (state, battery, firmware), `signal_quality` (per-electrode 0–1),
-`session` (duration, epochs), `embeddings`, `labels`, `sleep` summary, and `history`.
-
-### Interpreting the Output
-
-Parse the JSON and translate metrics into natural language. Never report raw
-numbers alone — always give them meaning:
-
-**DO:**
-> "Your focus is solid right now at 0.70 — that's flow state territory. Heart
-> rate is steady at 68 bpm and your FAA is positive, which suggests good
-> approach motivation. Great time to tackle something complex."
-
-**DON'T:**
-> "Focus: 0.70, Relaxation: 0.40, HR: 68"
-
-Key interpretation thresholds (see `references/metrics.md` for the full guide):
-- **Focus > 0.70** → flow state territory, protect it
-- **Focus &lt; 0.40** → suggest a break or protocol
-- **Drowsiness > 0.60** → fatigue warning, micro-sleep risk
-- **Relaxation &lt; 0.30** → stress intervention needed
-- **Cognitive Load > 0.70 sustained** → mind dump or break
-- **TBR > 1.5** → theta-dominant, reduced executive control
-- **FAA &lt; 0** → withdrawal/negative affect — consider FAA rebalancing
-- **SNR &lt; 3 dB** → unreliable signal, suggest electrode repositioning
-
----
-
-## 2. Session Analysis
-
-### Single Session Breakdown
-```bash
-npx neuroskill session --json         # most recent session
-npx neuroskill session 1 --json       # previous session
-npx neuroskill session 0 --json | jq '{focus: .metrics.focus, trend: .trends.focus}'
-```
-
-Returns full metrics with **first-half vs second-half trends** (`"up"`, `"down"`, `"flat"`).
-Use this to describe how a session evolved:
-
-> "Your focus started at 0.64 and climbed to 0.76 by the end — a clear upward trend.
-> Cognitive load dropped from 0.38 to 0.28, suggesting the task became more automatic
-> as you settled in."
-
-### List All Sessions
-```bash
-npx neuroskill sessions --json
-npx neuroskill sessions --trends      # show per-session metric trends
-```
-
----
-
-## 3. Historical Search
-
-### Neural Similarity Search
-```bash
-npx neuroskill search --json                    # auto: last session, k=5
-npx neuroskill search --k 10 --json             # 10 nearest neighbors
-npx neuroskill search --start <UTC> --end <UTC> --json
-```
-
-Finds moments in history that are neurally similar using HNSW approximate
-nearest-neighbor search over 128-D ZUNA embeddings. Returns distance statistics,
-temporal distribution (hour of day), and top matching days.
-
-Use this when the user asks:
-- "When was I last in a state like this?"
-- "Find my best focus sessions"
-- "When do I usually crash in the afternoon?"
-
-### Semantic Label Search
-```bash
-npx neuroskill search-labels "deep focus" --k 10 --json
-npx neuroskill search-labels "stress" --json | jq '[.results[].EXG_metrics.tbr]'
-```
-
-Searches label text using vector embeddings (Xenova/bge-small-en-v1.5). Returns
-matching labels with their associated EXG metrics at the time of labeling.
-
-### Cross-Modal Graph Search
-```bash
-npx neuroskill interactive "deep focus" --json
-npx neuroskill interactive "deep focus" --dot | dot -Tsvg > graph.svg
-```
-
-4-layer graph: query → text labels → EXG points → nearby labels. Use `--k-text`,
-`--k-EXG`, `--reach <minutes>` to tune.
-
----
-
-## 4. Session Comparison
-```bash
-npx neuroskill compare --json                   # auto: last 2 sessions
-npx neuroskill compare --a-start <UTC> --a-end <UTC> --b-start <UTC> --b-end <UTC> --json
-```
-
-Returns metric deltas with absolute change, percentage change, and direction for
-~50 metrics. Also includes `insights.improved[]` and `insights.declined[]` arrays,
-sleep staging for both sessions, and a UMAP job ID.
-
-Interpret comparisons with context — mention trends, not just deltas:
-> "Yesterday you had two strong focus blocks (10am and 2pm). Today you've had one
-> starting around 11am that's still going. Your overall engagement is higher today
-> but there have been more stress spikes — your stress index jumped 15% and
-> FAA dipped negative more often."
-
-```bash
-# Sort metrics by improvement percentage
-npx neuroskill compare --json | jq '.insights.deltas | to_entries | sort_by(.value.pct) | reverse'
-```
-
----
-
-## 5. Sleep Data
-```bash
-npx neuroskill sleep --json                     # last 24 hours
-npx neuroskill sleep 0 --json                   # most recent sleep session
-npx neuroskill sleep --start <UTC> --end <UTC> --json
-```
-
-Returns epoch-by-epoch sleep staging (5-second windows) with analysis:
-- **Stage codes**: 0=Wake, 1=N1, 2=N2, 3=N3 (deep), 4=REM
-- **Analysis**: efficiency_pct, onset_latency_min, rem_latency_min, bout counts
-- **Healthy targets**: N3 15–25%, REM 20–25%, efficiency >85%, onset &lt;20 min
-
-```bash
-npx neuroskill sleep --json | jq '.summary | {n3: .n3_epochs, rem: .rem_epochs}'
-npx neuroskill sleep --json | jq '.analysis.efficiency_pct'
-```
-
-Use this when the user mentions sleep, tiredness, or recovery.
-
----
-
-## 6. Labeling Moments
-```bash
-npx neuroskill label "breakthrough"
-npx neuroskill label "studying algorithms"
-npx neuroskill label "post-meditation"
-npx neuroskill label --json "focus block start"   # returns label_id
-```
-
-Auto-label moments when:
-- User reports a breakthrough or insight
-- User starts a new task type (e.g., "switching to code review")
-- User completes a significant protocol
-- User asks you to mark the current moment
-- A notable state transition occurs (entering/leaving flow)
-
-Labels are stored in a database and indexed for later retrieval via `search-labels`
-and `interactive` commands.
-
----
-
-## 7. Real-Time Streaming
-```bash
-npx neuroskill listen --seconds 30 --json
-npx neuroskill listen --seconds 5 --json | jq '[.[] | select(.event == "scores")]'
-```
-
-Streams live WebSocket events (EXG, PPG, IMU, scores, labels) for the specified
-duration. Requires WebSocket connection (not available with `--http`).
-
-Use this for continuous monitoring scenarios or to observe metric changes in real-time
-during a protocol.
-
----
-
-## 8. UMAP Visualization
-```bash
-npx neuroskill umap --json                      # auto: last 2 sessions
-npx neuroskill umap --a-start <UTC> --a-end <UTC> --b-start <UTC> --b-end <UTC> --json
-```
-
-GPU-accelerated 3D UMAP projection of ZUNA embeddings. The `separation_score`
-indicates how neurally distinct two sessions are:
-- **> 1.5** → Sessions are neurally distinct (different brain states)
-- **&lt; 0.5** → Similar brain states across both sessions
-
----
-
-## 9. Proactive State Awareness
-
-### Session Start Check
-At the beginning of a session, optionally run a status check if the user mentions
-they're wearing their device or asks about their state:
-```bash
-npx neuroskill status --json
-```
-
-Inject a brief state summary:
-> "Quick check-in: focus is building at 0.62, relaxation is good at 0.55, and your
-> FAA is positive — approach motivation is engaged. Looks like a solid start."
-
-### When to Proactively Mention State
-
-Mention cognitive state **only** when:
-- User explicitly asks ("How am I doing?", "Check my focus")
-- User reports difficulty concentrating, stress, or fatigue
-- A critical threshold is crossed (drowsiness > 0.70, focus &lt; 0.30 sustained)
-- User is about to do something cognitively demanding and asks for readiness
-
-**Do NOT** interrupt flow state to report metrics. If focus > 0.75, protect the
-session — silence is the correct response.
-
----
-
-## 10. Suggesting Protocols
-
-When metrics indicate a need, suggest a protocol from `references/protocols.md`.
-Always ask before starting — never interrupt flow state:
-
-> "Your focus has been declining for the past 15 minutes and TBR is climbing past
-> 1.5 — signs of theta dominance and mental fatigue. Want me to walk you through
-> a Theta-Beta Neurofeedback Anchor? It's a 90-second exercise that uses rhythmic
-> counting and breath to suppress theta and lift beta."
-
-Key triggers:
-- **Focus &lt; 0.40, TBR > 1.5** → Theta-Beta Neurofeedback Anchor or Box Breathing
-- **Relaxation &lt; 0.30, stress_index high** → Cardiac Coherence or 4-7-8 Breathing
-- **Cognitive Load > 0.70 sustained** → Cognitive Load Offload (mind dump)
-- **Drowsiness > 0.60** → Ultradian Reset or Wake Reset
-- **FAA &lt; 0 (negative)** → FAA Rebalancing
-- **Flow State (focus > 0.75, engagement > 0.70)** → Do NOT interrupt
-- **High stillness + headache_index** → Neck Release Sequence
-- **Low RMSSD (&lt; 25ms)** → Vagal Toning
-
----
-
-## 11. Additional Tools
-
-### Focus Timer
-```bash
-npx neuroskill timer --json
-```
-Launches the Focus Timer window with Pomodoro (25/5), Deep Work (50/10), or
-Short Focus (15/5) presets.
-
-### Calibration
-```bash
-npx neuroskill calibrate
-npx neuroskill calibrate --profile "Eyes Open"
-```
-Opens the calibration window. Useful when signal quality is poor or the user
-wants to establish a personalized baseline.
-
-### OS Notifications
-```bash
-npx neuroskill notify "Break Time" "Your focus has been declining for 20 minutes"
-```
-
-### Raw JSON Passthrough
-```bash
-npx neuroskill raw '{"command":"status"}' --json
-```
-For any server command not yet mapped to a CLI subcommand.
-
----
-
-## Error Handling
-
-| Error | Likely Cause | Fix |
-|-------|-------------|-----|
-| `npx neuroskill status` hangs | NeuroSkill app not running | Open NeuroSkill desktop app |
-| `device.state: "disconnected"` | BCI device not connected | Check Bluetooth, device battery |
-| All scores return 0 | Poor electrode contact | Reposition headband, moisten electrodes |
-| `signal_quality` values &lt; 0.7 | Loose electrodes | Adjust fit, clean electrode contacts |
-| SNR &lt; 3 dB | Noisy signal | Minimize head movement, check environment |
-| `command not found: npx` | Node.js not installed | Install Node.js 20+ |
-
----
-
-## Example Interactions
-
-**"How am I doing right now?"**
-```bash
-npx neuroskill status --json
-```
-→ Interpret scores naturally, mentioning focus, relaxation, mood, and any notable
-  ratios (FAA, TBR). Suggest an action only if metrics indicate a need.
-
-**"I can't concentrate"**
-```bash
-npx neuroskill status --json
-```
-→ Check if metrics confirm it (high theta, low beta, rising TBR, high drowsiness).
-→ If confirmed, suggest an appropriate protocol from `references/protocols.md`.
-→ If metrics look fine, the issue may be motivational rather than neurological.
-
-**"Compare my focus today vs yesterday"**
-```bash
-npx neuroskill compare --json
-```
-→ Interpret trends, not just numbers. Mention what improved, what declined, and
-  possible causes.
-
-**"When was I last in a flow state?"**
-```bash
-npx neuroskill search-labels "flow" --json
-npx neuroskill search --json
-```
-→ Report timestamps, associated metrics, and what the user was doing (from labels).
-
-**"How did I sleep?"**
-```bash
-npx neuroskill sleep --json
-```
-→ Report sleep architecture (N3%, REM%, efficiency), compare to healthy targets,
-  and note any issues (high wake epochs, low REM).
-
-**"Mark this moment — I just had a breakthrough"**
-```bash
-npx neuroskill label "breakthrough"
-```
-→ Confirm label saved. Optionally note the current metrics to remember the state.
-
----
-
-## References
-
-- [NeuroSkill Paper — arXiv:2603.03212](https://arxiv.org/abs/2603.03212) (Kosmyna & Hauptmann, MIT Media Lab)
-- [NeuroSkill Desktop App](https://github.com/NeuroSkill-com/skill) (GPLv3)
-- [NeuroLoop CLI Companion](https://github.com/NeuroSkill-com/neuroloop) (GPLv3)
-- [MIT Media Lab Project](https://www.media.mit.edu/projects/neuroskill/overview/)