feat: clinical-coder skill package v0.1.0

2026-08-14 18:17:08 +02:00
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--- a/PROVENANCE.md
+++ b/PROVENANCE.md
@@ -0,0 +1,31 @@
+# Data provenance — clinical-coder
+
+Where the content of this skill package comes from, counted by
+content items (tasks, competences, tools, evidence entries, curated
+knowledge). Rendered live by Gitea:
+
+```mermaid
+%%{init: {'theme':'base','themeVariables':{'pie1':'#f9a825','pie2':'#1e88e5','pie3':'#ff355e','pie4':'#d97757','pie5':'#8e24aa','pieOuterStrokeWidth':'0px','pieSectionTextColor':'#fff'}}}%%
+pie showData
+    title Content sources — clinical-coder
+    "ESCO (occupation & competences)" : 24
+    "O*NET (tasks & tools)" : 143
+    "Job boards (market evidence)" : 135
+    "Anthropic official Claude skills" : 5
+    "External AI skill packs (mapped)" : 156
+```
+
+| Source | Items | Share | Files |
+|---|---|---|---|
+| ESCO (occupation & competences) | 24 | 5.2 % | references/profile.md, references/skills.md |
+| O*NET (tasks & tools) | 143 | 30.9 % | references/tasks.md, references/tools.md |
+| Job boards (market evidence) | 135 | 29.2 % | references/market.md (full report) + "Market evidence" headline sections |
+| Wikipedia & AI expert curation | 0 | 0.0 % | glossary, literature, usecases, intake, quality, evals/ |
+| Anthropic official Claude skills | 5 | 1.1 % | references/ai-skills.md, section "anthropics/skills" (official Claude Code skills) |
+| External AI skill packs (mapped) | 156 | 33.7 % | references/ai-skills.md (per-source attribution inside) |
+| Stack Exchange practitioner Q&A (CC-BY-SA) | 0 | 0.0 % | references/practitioner-qa.md (per-entry attribution inside) |
+
+Licensing: O*NET (USDOL/ETA, CC BY 4.0) · ESCO (© European Union) ·
+job-ad evidence via official APIs (JSearch/Adzuna) · Wikipedia content
+paraphrased with source URLs — never copied · external AI skills are
+linked, not copied (Apache-2.0/MIT/source-available, see ai-skills.md).
--- a/SKILL.md
+++ b/SKILL.md
@@ -0,0 +1,50 @@
+---
+name: clinical-coder
+description: "Occupational skill for the role 'clinical coder' (also: clinical records technician, medical coder, medical coding officer, accredited clinical coder, clinical coding officer, clinical coding expert). Use when the user asks for typical clinical coder work such as: typical clinical coder responsibilities"
+---
+
+# Clinical Coder
+
+Clinical coders read patients' medical records. They analyse and interpret medical statements about diseases, injuries and procedures. Clinical coders convert this information into health classification codes in order to calculate treatment reimbursements, to produce statistics and to monitor health care performance.
+
+## Core workflow
+
+
+## How to use this skill
+
+- Read [references/profile.md](references/profile.md) for the occupation profile and scope.
+- Consult [references/tasks.md](references/tasks.md) for the full task and activity inventory.
+- Check [references/skills.md](references/skills.md) for essential vs. optional competences.
+- Check [references/tools.md](references/tools.md) for the software commonly used in this role.
+- See [references/ai-skills.md](references/ai-skills.md) — matched external AI agent skills (per-source attribution).
+
+## Key competences (essential)
+
+- adhere to organisational guidelines
+- clinical coding
+- communicate in healthcare
+- document management
+- follow clinical guidelines
+- maintain healthcare user data confidentiality
+- manage healthcare users' data
+- medical terminology
+- perform clinical coding procedures
+- professional documentation in health care
+- review patient's medical data
+- use electronic health records management system
+
+## Hot technologies
+
+- eClinicalWorks EHR software
+- Epic Systems
+- Henry Schein Dentrix
+- IBM SPSS Statistics
+- MEDITECH software
+- Microsoft Access
+- Microsoft Excel
+- Microsoft Office software
+- Microsoft Outlook
+- Microsoft PowerPoint
+
+---
+*Sources: ESCO v1.2.1 (http://data.europa.eu/esco/occupation/6219f0ef-6414-4d01-9221-41ac25dcb409), O*NET 30.3 (29-2072.00, manual nearest match). See manifest.json for licensing/attribution.*
--- a/manifest.json
+++ b/manifest.json
@@ -0,0 +1,232 @@
+{
+  "name": "clinical-coder",
+  "title": "clinical coder",
+  "version": "0.1.0",
+  "layer": "core",
+  "language": "en",
+  "generated": "2026-07-07",
+  "ids": {
+    "esco_uri": "http://data.europa.eu/esco/occupation/6219f0ef-6414-4d01-9221-41ac25dcb409",
+    "esco_code": "3252.1.1",
+    "isco_group": "3252",
+    "onet_soc": "29-2072.00",
+    "crosswalk_match": "manual nearest via ISCO 3252 (Medical Records Specialists)"
+  },
+  "sources": [
+    {
+      "name": "ESCO",
+      "version": "1.2.1",
+      "url": "https://esco.ec.europa.eu/"
+    },
+    {
+      "name": "O*NET",
+      "version": "30.3",
+      "url": "https://www.onetcenter.org/",
+      "license": "CC BY 4.0"
+    }
+  ],
+  "attribution": "This package includes information from the O*NET Database (v30.3) by the U.S. Department of Labor, Employment and Training Administration (USDOL/ETA), CC BY 4.0. skillfactor is not endorsed by USDOL/ETA. ESCO data (v1.2.1) (c) European Union, used per the ESCO download conditions: https://esco.ec.europa.eu/en/use-esco/download",
+  "counts": {
+    "tasks": 0,
+    "dwas": 0,
+    "skills_essential": 12,
+    "skills_optional": 11,
+    "software": 0
+  },
+  "enrichment_ai_skills": {
+    "generated": "2026-07-14",
+    "method": "deterministic mapping (ISCO prefix + title/competence keywords)",
+    "sources": {
+      "anthropics/skills": {
+        "repo": "https://github.com/anthropics/skills",
+        "commit": "f6656c1",
+        "license": "Apache-2.0; the document skills (docx/pdf/pptx/xlsx) are source-available \u2014 see the LICENSE.txt in the upstream skill folder",
+        "skills": 2
+      },
+      "a5c-ai/babysitter": {
+        "repo": "https://github.com/a5c-ai/babysitter",
+        "commit": "44a5d58b",
+        "license": "MIT",
+        "skills": 12
+      },
+      "jeremylongshore/claude-code-plugins-plus-skills": {
+        "repo": "https://github.com/jeremylongshore/claude-code-plugins-plus-skills",
+        "commit": "e112938a",
+        "license": "MIT",
+        "skills": 12
+      },
+      "davila7/claude-code-templates": {
+        "repo": "https://github.com/davila7/claude-code-templates",
+        "commit": "fa79251",
+        "license": "MIT",
+        "skills": 10
+      },
+      "alirezarezvani/claude-skills": {
+        "repo": "https://github.com/alirezarezvani/claude-skills",
+        "commit": "0241f43",
+        "license": "MIT",
+        "skills": 7
+      },
+      "K-Dense-AI/claude-scientific-skills": {
+        "repo": "https://github.com/K-Dense-AI/claude-scientific-skills",
+        "commit": "4d97e29",
+        "license": "MIT",
+        "skills": 3
+      },
+      "foryourhealth111-pixel/Vibe-Skills": {
+        "repo": "https://github.com/foryourhealth111-pixel/Vibe-Skills",
+        "commit": "34429a8",
+        "license": "Apache-2.0",
+        "skills": 4
+      },
+      "K-Dense-AI/scientific-agent-skills": {
+        "repo": "https://github.com/K-Dense-AI/scientific-agent-skills",
+        "commit": "4d97e29",
+        "license": "MIT",
+        "skills": 3
+      },
+      "stjbrown/agent-knowledge": {
+        "repo": "https://github.com/stjbrown/agent-knowledge",
+        "commit": "0d1a828",
+        "license": "MIT",
+        "skills": 1
+      },
+      "Sushegaad/Claude-Skills-Governance-Risk-and-Compliance": {
+        "repo": "https://github.com/Sushegaad/Claude-Skills-Governance-Risk-and-Compliance",
+        "commit": "71d8920",
+        "license": "MIT",
+        "skills": 1
+      },
+      "microsoft/skills": {
+        "repo": "https://github.com/microsoft/skills",
+        "commit": "dc543aa",
+        "license": "MIT",
+        "skills": 1
+      },
+      "rohitg00/pro-workflow": {
+        "repo": "https://github.com/rohitg00/pro-workflow",
+        "commit": "5c313e2",
+        "license": "no explicit license \u2014 referenced by link only",
+        "skills": 1
+      },
+      "nanocoai/nanoclaw": {
+        "repo": "https://github.com/nanocoai/nanoclaw",
+        "commit": "da9a74f",
+        "license": "MIT",
+        "skills": 1
+      },
+      "hqhq1025/skill-optimizer": {
+        "repo": "https://github.com/hqhq1025/skill-optimizer",
+        "commit": "b9ffd15",
+        "license": "MIT",
+        "skills": 1
+      },
+      "shanraisshan/claude-code-best-practice": {
+        "repo": "https://github.com/shanraisshan/claude-code-best-practice",
+        "commit": "67c2696",
+        "license": "MIT",
+        "skills": 1
+      },
+      "brycewang-stanford/Auto-Empirical-Research-Skills": {
+        "repo": "https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills",
+        "commit": "85bf545",
+        "license": "CC-BY-4.0",
+        "skills": 6
+      },
+      "nexu-io/open-design": {
+        "repo": "https://github.com/nexu-io/open-design",
+        "commit": "4b66023",
+        "license": "Apache-2.0",
+        "skills": 3
+      },
+      "affaan-m/everything-claude-code": {
+        "repo": "https://github.com/affaan-m/everything-claude-code",
+        "commit": "ed38744",
+        "license": "MIT",
+        "skills": 2
+      },
+      "mohitagw15856/pm-claude-skills": {
+        "repo": "https://github.com/mohitagw15856/pm-claude-skills",
+        "commit": "876fa30",
+        "license": "MIT",
+        "skills": 1
+      },
+      "open-gitagent/opengap": {
+        "repo": "https://github.com/open-gitagent/opengap",
+        "commit": "d7a8e2e",
+        "license": "MIT",
+        "skills": 1
+      },
+      "giuseppe-trisciuoglio/developer-kit": {
+        "repo": "https://github.com/giuseppe-trisciuoglio/developer-kit",
+        "commit": "306f428",
+        "license": "MIT",
+        "skills": 1
+      },
+      "parcadei/Continuous-Claude-v3": {
+        "repo": "https://github.com/parcadei/Continuous-Claude-v3",
+        "commit": "d07ff4b",
+        "license": "MIT",
+        "skills": 1
+      },
+      "vibeeval/vibecosystem": {
+        "repo": "https://github.com/vibeeval/vibecosystem",
+        "commit": "cea9462",
+        "license": "MIT",
+        "skills": 1
+      },
+      "ruvnet/claude-code-flow": {
+        "repo": "https://github.com/ruvnet/claude-code-flow",
+        "commit": "73914bd",
+        "license": "MIT",
+        "skills": 1
+      },
+      "ruvnet/ruflo": {
+        "repo": "https://github.com/ruvnet/ruflo",
+        "commit": "73914bd",
+        "license": "MIT",
+        "skills": 1
+      },
+      "basicmachines-co/basic-memory": {
+        "repo": "https://github.com/basicmachines-co/basic-memory",
+        "commit": "53da71c",
+        "license": "custom (see upstream LICENSE)",
+        "skills": 1
+      },
+      "wanshuiyin/Auto-claude-code-research-in-sleep": {
+        "repo": "https://github.com/wanshuiyin/Auto-claude-code-research-in-sleep",
+        "commit": "eb5c9d7",
+        "license": "MIT",
+        "skills": 1
+      }
+    },
+    "total_skills": 80,
+    "tiers": {
+      "core": 78,
+      "adjacent": 2
+    }
+  },
+  "provenance": {
+    "items": {
+      "esco": 24,
+      "onet": 143,
+      "jobads": 135,
+      "wiki_ai": 0,
+      "anthropic": 5,
+      "ai_skills": 156,
+      "stackx": 0
+    },
+    "share_percent": {
+      "esco": 5.2,
+      "onet": 30.9,
+      "jobads": 29.2,
+      "wiki_ai": 0.0,
+      "anthropic": 1.1,
+      "ai_skills": 33.7,
+      "stackx": 0.0
+    },
+    "method": "content items per source category"
+  },
+  "collar": "white",
+  "computer_work": true
+}
--- a/references/ai-skills.md
+++ b/references/ai-skills.md
@@ -0,0 +1,314 @@
+# External AI agent skills — clinical-coder
+
+Proven, publicly available AI agent skills mapped to this occupation.
+Nothing is copied from the sources: every entry is a name, a one-line
+summary and a link to the upstream skill package. Each section names
+its source repository, commit, license and retrieval date.
+
+**Tiers:** `core` = the skill directly exercises a top market hard
+skill, tool or method (from gated job-ad evidence) or an essential
+ESCO competence of this occupation; `adjacent` =
+plausibly useful, secondary. Entries are capped at 12 per source
+and 80 in total per occupation (core first,
+strongest matches survive); everything beyond the caps is excluded
+and logged in the pipeline audit trail, not in this package.
+
+_Matched deterministically (ISCO group + title/competence keywords,
+tiered against market evidence + ESCO essentials) by
+`pipeline/p5_enrich_ai_skills.py` on 2026-07-14._
+
+## Source: anthropics/skills
+
+- Repository: [https://github.com/anthropics/skills](https://github.com/anthropics/skills) (commit `f6656c1`, retrieved 2026-07-14)
+- License: Apache-2.0; the document skills (docx/pdf/pptx/xlsx) are source-available — see the LICENSE.txt in the upstream skill folder
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `docx` | adjacent | Use this skill whenever the user wants to create, read, edit, or manipulate Word documents (.docx files) or Word templates (.dotx files). Triggers include: any mention of 'Word doc', 'word document', '.docx', '.dotx', or requests to … | [source](https://github.com/anthropics/skills/tree/main/skills/docx) |
+| `pdf` | adjacent | Use this skill whenever the user wants to do anything with PDF files. This includes reading or extracting text/tables from PDFs, combining or merging multiple PDFs into one, splitting PDFs apart, rotating pages, adding watermarks, creating … | [source](https://github.com/anthropics/skills/tree/main/skills/pdf) |
+
+## Source: a5c-ai/babysitter
+
+- Repository: [https://github.com/a5c-ai/babysitter](https://github.com/a5c-ai/babysitter) (commit `44a5d58b`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `medical-coding-audit` | core | Review clinical documentation and assigned codes for accuracy, compliance, and optimization, identifying documentation improvement opportunities and coding errors | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/medical-coding-audit) |
+| `clinical-documentation-query` | core | Generate compliant physician queries to clarify clinical documentation for accurate coding, severity of illness, and risk of mortality capture | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/clinical-documentation-query) |
+| `health-data-integration` | core | Facilitate interoperability between health IT systems including EHR, HIE, and clinical decision support through HL7, FHIR, and other healthcare data standards | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/health-data-integration) |
+| `population-health-stratification` | core | Stratify patient populations by risk level using claims data, clinical data, and social determinants to prioritize care management interventions | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/population-health-stratification) |
+| `clinical-workflow-analysis` | core | Analyze clinical workflows to identify inefficiencies, bottlenecks, and improvement opportunities using Lean healthcare principles and value stream mapping techniques | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/clinical-workflow-analysis) |
+| `clinical-decision-support-rules` | core | Develop and maintain clinical decision support rules including alerts, reminders, order sets, and evidence-based recommendations within EHR systems | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/clinical-decision-support-rules) |
+| `accreditation-tracer-simulation` | core | Simulate Joint Commission tracer methodology to assess compliance with accreditation standards across patient care processes and support systems | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/social-sciences-humanities/healthcare/skills/accreditation-tracer-simulation) |
+| `clinvar-querier` | core | ClinVar database query skill for clinical variant interpretation and pathogenicity lookup | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/science/bioinformatics/skills/clinvar-querier) |
+| `iso-standards-compliance-checker` | core | Medical device standards compliance verification skill for ISO 13485, ISO 14971, IEC 62304, IEC 60601, and related standards | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/science/biomedical-engineering/skills/iso-standards-compliance-checker) |
+| `iso14971-risk-analyzer` | core | Comprehensive risk management skill implementing ISO 14971:2019 methodology for medical device risk analysis | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/science/biomedical-engineering/skills/iso14971-risk-analyzer) |
+| `eu-mdr-gspr-mapper` | core | EU MDR General Safety and Performance Requirements (GSPR) mapping and compliance documentation skill | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/science/biomedical-engineering/skills/eu-mdr-gspr-mapper) |
+| `image-algorithm-validator` | core | Medical image processing algorithm validation skill for segmentation, detection, and analysis algorithms | [source](https://github.com/a5c-ai/babysitter/tree/44a5d58b/library/specializations/domains/science/biomedical-engineering/skills/image-algorithm-validator) |
+
+## Source: affaan-m/everything-claude-code
+
+- Repository: [https://github.com/affaan-m/everything-claude-code](https://github.com/affaan-m/everything-claude-code) (commit `ed38744`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `healthcare-cdss-patterns` | core | Clinical Decision Support System (CDSS) development patterns. Drug interaction checking, dose validation, clinical scoring (NEWS2, qSOFA), alert severity classification, and integration into EMR workflows. | [source](https://github.com/affaan-m/everything-claude-code/tree/ed38744/skills/healthcare-cdss-patterns) |
+| `healthcare-eval-harness` | core | Patient safety evaluation harness for healthcare application deployments. Automated test suites for CDSS accuracy, PHI exposure, clinical workflow integrity, and integration compliance. Blocks deployments on safety failures. | [source](https://github.com/affaan-m/everything-claude-code/tree/ed38744/skills/healthcare-eval-harness) |
+
+## Source: alirezarezvani/claude-skills
+
+- Repository: [https://github.com/alirezarezvani/claude-skills](https://github.com/alirezarezvani/claude-skills) (commit `0241f43`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `quality-documentation-manager` | core | Document control system management for medical device QMS. Covers document numbering, version control, change management, and 21 CFR Part 11 compliance. Use when working on document control procedures, change control workflows, document … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/quality-documentation-manager) |
+| `mdr-745-specialist` | core | EU MDR 2017/745 compliance specialist for medical device classification, technical documentation, clinical evidence, and post-market surveillance. Covers Annex VIII classification rules, Annex II/III technical files, Annex XIV clinical … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/mdr-745-specialist) |
+| `quality-manager-qms-iso13485` | core | ISO 13485 Quality Management System implementation and maintenance for medical device organizations. Provides QMS design, documentation control, internal auditing, CAPA management, and certification support. Use when working with medical … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/quality-manager-qms-iso13485) |
+| `capa-officer` | core | CAPA system management for medical device QMS. Covers root cause analysis, corrective action planning, effectiveness verification, and CAPA metrics. Use when running CAPA investigations, 5-Why analysis, fishbone diagrams, root cause … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/capa-officer) |
+| `risk-management-specialist` | core | Medical device risk management specialist implementing ISO 14971 throughout product lifecycle. Provides risk analysis, risk evaluation, risk control, and post-production information analysis. Use when user mentions risk management, ISO … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/risk-management-specialist) |
+| `fda-consultant-specialist` | core | FDA regulatory consultant for medical device companies. Provides 510(k)/PMA/De Novo pathway guidance, QMSR (21 CFR 820, which incorporates ISO 13485:2016 by reference since 2026-02-02; formerly QSR) compliance, HIPAA assessments, and … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/ra-qm-team/skills/fda-consultant-specialist) |
+| `compliance-readiness` | core | /cs:compliance-readiness <program> — Multi-framework compliance officer 6-question forcing interrogation of any compliance program. Use before starting a new framework, planning the annual audit calendar, or preparing for certification … | [source](https://github.com/alirezarezvani/claude-skills/tree/0241f43/compliance-os/skills/compliance-readiness) |
+
+## Source: basicmachines-co/basic-memory
+
+- Repository: [https://github.com/basicmachines-co/basic-memory](https://github.com/basicmachines-co/basic-memory) (commit `53da71c`, retrieved 2026-07-14)
+- License: custom (see upstream LICENSE)
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `memory-tasks` | core | Task management via Basic Memory schemas: create, track, and resume structured tasks that survive context compaction. Uses BM's schema system for uniform notes queryable through the knowledge graph. | [source](https://github.com/basicmachines-co/basic-memory/tree/53da71c/skills/memory-tasks) |
+
+## Source: brycewang-stanford/Auto-Empirical-Research-Skills
+
+- Repository: [https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills) (commit `85bf545`, retrieved 2026-07-14)
+- License: CC-BY-4.0
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `biomedical-skills` | core | 24 biomedical research skills. Trigger: medical research, clinical trials, genomics, bioinformatics. Design: domain databases, wet-lab/dry-lab methods, and ethical compliance guides. | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/43-wentorai-research-plugins/skills/domains/biomedical) |
+| `clinical-research-guide` | core | Design clinical studies and report using CONSORT, STROBE guidelines | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/43-wentorai-research-plugins/skills/domains/biomedical/clinical-research-guide) |
+| `doctor` | core | System diagnostics and health checks for Diverga plugin. OpenClaw-style Check-Report-Fix pattern with 5-layer diagnostics. Triggers: /diverga:doctor, diverga doctor, system check, diagnose, 진단 | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/25-HosungYou-Diverga/skills/doctor) |
+| `lifelines` | core | Complete survival analysis library in Python. Handles right-censored data, Kaplan-Meier curves, and Cox regression. Standard for clinical trial analysis and epidemiology. | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/63-tondevrel-scientific-agent-skills/lifelines) |
+| `medical-imaging-review` | core | — | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/02-luwill-research-skills/medical-imaging-review) |
+| `med-researcher-r1-guide` | core | Medical deep research agent with reasoning chain analysis | [source](https://github.com/brycewang-stanford/Auto-Empirical-Research-Skills/tree/85bf545/skills/43-wentorai-research-plugins/skills/domains/biomedical/med-researcher-r1-guide) |
+
+## Source: davila7/claude-code-templates
+
+- Repository: [https://github.com/davila7/claude-code-templates](https://github.com/davila7/claude-code-templates) (commit `fa79251`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `mdr-745-specialist` | core | EU MDR 2017/745 regulation specialist and consultant for medical device requirement management. Provides comprehensive MDR compliance expertise, gap analysis, technical documentation guidance, clinical evidence requirements, and … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/enterprise-communication/mdr-745-specialist) |
+| `quality-manager-qms-iso13485` | core | ISO 13485 Quality Management System specialist for medical device companies. Provides QMS implementation, maintenance, process optimization, and compliance expertise. Use for QMS design, documentation control, management review, internal … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/enterprise-communication/quality-manager-qms-iso13485) |
+| `treatment-plans` | core | Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties. Supports general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/scientific/treatment-plans) |
+| `pyhealth` | core | Comprehensive healthcare AI toolkit for developing, testing, and deploying machine learning models with clinical data. This skill should be used when working with electronic health records (EHR), clinical prediction tasks (mortality, … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/scientific/pyhealth) |
+| `clinical-reports` | core | Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/scientific/clinical-reports) |
+| `fda-consultant-specialist` | core | Senior FDA consultant and specialist for medical device companies including HIPAA compliance and requirement management. Provides FDA pathway expertise, QSR compliance, cybersecurity guidance, and regulatory submission support. Use for FDA … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/enterprise-communication/fda-consultant-specialist) |
+| `risk-management-specialist` | core | Senior Risk Management specialist for medical device companies implementing ISO 14971 risk management throughout product lifecycle. Provides risk analysis, risk evaluation, risk control, and post-production information analysis. Use for … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/enterprise-communication/risk-management-specialist) |
+| `biomni` | core | Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR … | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/scientific/biomni) |
+| `agent-memory-mcp` | core | A hybrid memory system that provides persistent, searchable knowledge management for AI agents (Architecture, Patterns, Decisions). | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/ai-research/agent-memory-mcp) |
+| `code-review-excellence` | core | Transform code reviews from gatekeeping to knowledge sharing through constructive feedback, systematic analysis, and collaborative improvement. | [source](https://github.com/davila7/claude-code-templates/tree/fa79251/cli-tool/components/skills/productivity/code-review-excellence) |
+
+## Source: foryourhealth111-pixel/Vibe-Skills
+
+- Repository: [https://github.com/foryourhealth111-pixel/Vibe-Skills](https://github.com/foryourhealth111-pixel/Vibe-Skills) (commit `34429a8`, retrieved 2026-07-14)
+- License: Apache-2.0
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `treatment-plans` | core | Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties. Supports general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, … | [source](https://github.com/foryourhealth111-pixel/Vibe-Skills/tree/34429a8/bundled/skills/treatment-plans) |
+| `pyhealth` | core | Comprehensive healthcare AI toolkit for developing, testing, and deploying machine learning models with clinical data. This skill should be used when working with electronic health records (EHR), clinical prediction tasks (mortality, … | [source](https://github.com/foryourhealth111-pixel/Vibe-Skills/tree/34429a8/bundled/skills/pyhealth) |
+| `clinical-reports` | core | Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full … | [source](https://github.com/foryourhealth111-pixel/Vibe-Skills/tree/34429a8/bundled/skills/clinical-reports) |
+| `iso-13485-certification` | core | Comprehensive toolkit for preparing ISO 13485 certification documentation for medical device Quality Management Systems. Use when users need help with ISO 13485 QMS documentation, including (1) conducting gap analysis of existing … | [source](https://github.com/foryourhealth111-pixel/Vibe-Skills/tree/34429a8/bundled/skills/iso-13485-certification) |
+
+## Source: giuseppe-trisciuoglio/developer-kit
+
+- Repository: [https://github.com/giuseppe-trisciuoglio/developer-kit](https://github.com/giuseppe-trisciuoglio/developer-kit) (commit `306f428`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `memory-md-management` | core | Provides comprehensive memory file management capabilities including auditing, quality assessment, and targeted improvements for files such as CLAUDE.md. Use when user asks to check, audit, update, improve, fix, maintain, or validate … | [source](https://github.com/giuseppe-trisciuoglio/developer-kit/tree/306f428/plugins/developer-kit-core/skills/memory-md-management) |
+
+## Source: hqhq1025/skill-optimizer
+
+- Repository: [https://github.com/hqhq1025/skill-optimizer](https://github.com/hqhq1025/skill-optimizer) (commit `b9ffd15`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `skill-miner` | core | Use when mining coding-agent session history, archived transcripts, memories, or repeated local work to discover recurring workflows that should become new Agent Skills. | [source](https://github.com/hqhq1025/skill-optimizer/tree/b9ffd15/skills/skill-miner) |
+
+## Source: jeremylongshore/claude-code-plugins-plus-skills
+
+- Repository: [https://github.com/jeremylongshore/claude-code-plugins-plus-skills](https://github.com/jeremylongshore/claude-code-plugins-plus-skills) (commit `e112938a`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `abridge-sdk-patterns` | core | Apply production-ready patterns for Abridge clinical AI integration. Use when building reusable Abridge client wrappers, implementing HIPAA-compliant error handling, or establishing team coding standards for healthcare AI. Trigger: … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-sdk-patterns) |
+| `abridge-deploy-integration` | core | Deploy Abridge clinical AI integration to HIPAA-compliant cloud infrastructure. Use when deploying to GCP Cloud Run, AWS ECS, or Azure Container Apps with healthcare-grade secrets management and compliance controls. Trigger: "deploy … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-deploy-integration) |
+| `mnemos` | core | Persistent memory and learning-loop skills for AI coding agents using mnemos MCP tools. Use whenever mnemos_* MCP tools are available and you are doing work worth remembering. Cross-session memory, conventions, corrections, and … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/community/mnemos/.claude/skills/mnemos) |
+| `abridge-ci-integration` | core | Configure CI/CD pipeline for Abridge clinical AI integrations with GitHub Actions. Use when setting up automated testing, FHIR validation, HIPAA compliance checks, or deployment pipelines for healthcare AI applications. Trigger: "abridge … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-ci-integration) |
+| `abridge-install-auth` | core | Set up Abridge clinical AI platform authentication and EHR integration credentials. Use when onboarding a healthcare org to Abridge, configuring Epic/Athena integration, or setting up developer sandbox access for ambient AI documentation. … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-install-auth) |
+| `abridge-reference-architecture` | core | Implement Abridge reference architecture for clinical AI integration. Use when designing a new Abridge deployment, reviewing project structure, or planning multi-site health system rollouts with EHR integration. Trigger: "abridge … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-reference-architecture) |
+| `abridge-prod-checklist` | core | Execute Abridge production readiness checklist for clinical AI deployment. Use when launching Abridge in a healthcare org, preparing for go-live, or validating HIPAA compliance before production deployment. Trigger: "abridge production … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-prod-checklist) |
+| `abridge-upgrade-migration` | core | Plan and execute Abridge integration upgrades and EHR migration procedures. Use when upgrading Abridge API versions, migrating between EHR systems, or handling breaking changes in clinical documentation workflows. Trigger: "abridge … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-upgrade-migration) |
+| `abridge-performance-tuning` | core | Optimize Abridge clinical AI integration performance for high-volume deployments. Use when reducing note generation latency, optimizing audio streaming throughput, improving FHIR push performance, or scaling for multi-site health systems. … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-performance-tuning) |
+| `abridge-core-workflow-a` | core | Implement Abridge ambient clinical documentation capture-to-note pipeline. Use when building the primary encounter workflow: audio capture, real-time transcription, AI note generation, and EHR note insertion. Trigger: "abridge clinical … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-core-workflow-a) |
+| `abridge-core-workflow-b` | core | Implement Abridge patient-facing documentation and after-visit summary generation. Use when building patient portal integration, generating plain-language summaries, multi-language translations, or after-visit instructions from clinical … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-core-workflow-b) |
+| `abridge-hello-world` | core | Create a minimal Abridge ambient AI clinical documentation example. Use when testing Abridge integration, verifying EHR connectivity, or learning how Abridge captures and structures clinical conversations. Trigger: "abridge hello world", … | [source](https://github.com/jeremylongshore/claude-code-plugins-plus-skills/tree/e112938a/plugins/saas-packs/abridge-pack/skills/abridge-hello-world) |
+
+## Source: K-Dense-AI/claude-scientific-skills
+
+- Repository: [https://github.com/K-Dense-AI/claude-scientific-skills](https://github.com/K-Dense-AI/claude-scientific-skills) (commit `4d97e29`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `treatment-plans` | core | Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties. Supports general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, … | [source](https://github.com/K-Dense-AI/claude-scientific-skills/tree/4d97e29/skills/treatment-plans) |
+| `clinical-reports` | core | Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full … | [source](https://github.com/K-Dense-AI/claude-scientific-skills/tree/4d97e29/skills/clinical-reports) |
+| `iso-13485-certification` | core | Comprehensive toolkit for preparing ISO 13485 certification documentation for medical device Quality Management Systems. Use when users need help with ISO 13485 QMS documentation, including (1) conducting gap analysis of existing … | [source](https://github.com/K-Dense-AI/claude-scientific-skills/tree/4d97e29/skills/iso-13485-certification) |
+
+## Source: K-Dense-AI/scientific-agent-skills
+
+- Repository: [https://github.com/K-Dense-AI/scientific-agent-skills](https://github.com/K-Dense-AI/scientific-agent-skills) (commit `4d97e29`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `treatment-plans` | core | Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties. Supports general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, … | [source](https://github.com/K-Dense-AI/scientific-agent-skills/tree/4d97e29/skills/treatment-plans) |
+| `clinical-reports` | core | Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full … | [source](https://github.com/K-Dense-AI/scientific-agent-skills/tree/4d97e29/skills/clinical-reports) |
+| `iso-13485-certification` | core | Comprehensive toolkit for preparing ISO 13485 certification documentation for medical device Quality Management Systems. Use when users need help with ISO 13485 QMS documentation, including (1) conducting gap analysis of existing … | [source](https://github.com/K-Dense-AI/scientific-agent-skills/tree/4d97e29/skills/iso-13485-certification) |
+
+## Source: microsoft/skills
+
+- Repository: [https://github.com/microsoft/skills](https://github.com/microsoft/skills) (commit `dc543aa`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `continual-learning` | core | Guide for implementing continual learning in AI coding agents — hooks, memory scoping, reflection patterns. Use when setting up learning infrastructure for agents. | [source](https://github.com/microsoft/skills/tree/dc543aa/.github/skills/continual-learning) |
+
+## Source: mohitagw15856/pm-claude-skills
+
+- Repository: [https://github.com/mohitagw15856/pm-claude-skills](https://github.com/mohitagw15856/pm-claude-skills) (commit `876fa30`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `soap-note` | core | Structure a clinical encounter into a clean SOAP note. Use when asked to write a SOAP note, document a patient encounter, turn visit notes into clinical documentation, or structure subjective/objective/assessment/plan. Produces a … | [source](https://github.com/mohitagw15856/pm-claude-skills/tree/876fa30/plugins/pm-health/skills/soap-note) |
+
+## Source: nanocoai/nanoclaw
+
+- Repository: [https://github.com/nanocoai/nanoclaw](https://github.com/nanocoai/nanoclaw) (commit `da9a74f`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `migrate-memory` | core | Carry an agent group's memory across a provider switch, in either direction (e.g. Claude ↔ Codex, or any provider to/from another). Run after the operator switches a group's provider with `ncl groups config update --provider`. The coding … | [source](https://github.com/nanocoai/nanoclaw/tree/da9a74f/.claude/skills/migrate-memory) |
+
+## Source: nexu-io/open-design
+
+- Repository: [https://github.com/nexu-io/open-design](https://github.com/nexu-io/open-design) (commit `4b66023`, retrieved 2026-07-14)
+- License: Apache-2.0
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `clinical-case-report` | core | Structured medical case presentation for clinical rounds, conferences, and documentation. Generates SOAP-format or narrative case reports with physiologically accurate vitals, labs, and evidence-based plans. Use when the brief mentions … | [source](https://github.com/nexu-io/open-design/tree/4b66023/design-templates/clinical-case-report) |
+| `html-ppt-testing-safety-alert` | core | A hospital data-governance briefing: patient-data risk, the control framework, accountability, and the approval the board must give. Built as a decision-grade policy briefing deck for health-system board, regulators. | [source](https://github.com/nexu-io/open-design/tree/4b66023/design-templates/html-ppt-testing-safety-alert) |
+| `image-enhancer` | core | Improve image and screenshot quality by enhancing resolution, sharpness, and clarity for professional presentations and documentation. | [source](https://github.com/nexu-io/open-design/tree/4b66023/skills/image-enhancer) |
+
+## Source: open-gitagent/opengap
+
+- Repository: [https://github.com/open-gitagent/opengap](https://github.com/open-gitagent/opengap) (commit `d7a8e2e`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `document-review` | core | Reviews financial documents (prospectuses, ADVs, marketing materials) for FINRA 2210 compliance, required disclosures, and balanced presentation. Use when reviewing financial statements, audit documents, regulatory filings, or when the … | [source](https://github.com/open-gitagent/opengap/tree/d7a8e2e/examples/full/skills/document-review) |
+
+## Source: parcadei/Continuous-Claude-v3
+
+- Repository: [https://github.com/parcadei/Continuous-Claude-v3](https://github.com/parcadei/Continuous-Claude-v3) (commit `d07ff4b`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `mot` | core | System health check (MOT) for skills, agents, hooks, and memory | [source](https://github.com/parcadei/Continuous-Claude-v3/tree/d07ff4b/.claude/skills/mot) |
+
+## Source: rohitg00/pro-workflow
+
+- Repository: [https://github.com/rohitg00/pro-workflow](https://github.com/rohitg00/pro-workflow) (commit `5c313e2`, retrieved 2026-07-14)
+- License: no explicit license — referenced by link only
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `insights` | core | Show session analytics, learning patterns, correction trends, heatmaps, and productivity metrics. Computes stats from project memory and session history. Use when asking for stats, statistics, progress, how am I doing, coding history, or … | [source](https://github.com/rohitg00/pro-workflow/tree/5c313e2/skills/insights) |
+
+## Source: ruvnet/claude-code-flow
+
+- Repository: [https://github.com/ruvnet/claude-code-flow](https://github.com/ruvnet/claude-code-flow) (commit `73914bd`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `memory-management` | core | AgentDB memory system with HNSW vector search. Provides 150x-12,500x faster pattern retrieval, persistent storage, and semantic search capabilities for learning and knowledge management. Use when: need to store successful patterns, … | [source](https://github.com/ruvnet/claude-code-flow/tree/73914bd/.agents/skills/memory-management) |
+
+## Source: ruvnet/ruflo
+
+- Repository: [https://github.com/ruvnet/ruflo](https://github.com/ruvnet/ruflo) (commit `73914bd`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `memory-management` | core | AgentDB memory system with HNSW vector search. Provides 150x-12,500x faster pattern retrieval, persistent storage, and semantic search capabilities for learning and knowledge management. Use when: need to store successful patterns, … | [source](https://github.com/ruvnet/ruflo/tree/73914bd/.agents/skills/memory-management) |
+
+## Source: shanraisshan/claude-code-best-practice
+
+- Repository: [https://github.com/shanraisshan/claude-code-best-practice](https://github.com/shanraisshan/claude-code-best-practice) (commit `67c2696`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `vibe-to-agentic-framework` | core | The conceptual framework behind the presentation — what "Vibe Coding to Agentic Engineering" means, why the journey is structured the way it is, and how every slide fits the narrative arc | [source](https://github.com/shanraisshan/claude-code-best-practice/tree/67c2696/.claude/skills/presentation/vibe-to-agentic-framework) |
+
+## Source: stjbrown/agent-knowledge
+
+- Repository: [https://github.com/stjbrown/agent-knowledge](https://github.com/stjbrown/agent-knowledge) (commit `0d1a828`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `kb` | core | Portable OKF knowledge bundle for coding-agent memory and LLM wikis. Use when the user wants to start a wiki, ingest a source, document a repository, query project knowledge with citations, lint for drift, or visualize connections; … | [source](https://github.com/stjbrown/agent-knowledge/tree/0d1a828/skills/kb) |
+
+## Source: Sushegaad/Claude-Skills-Governance-Risk-and-Compliance
+
+- Repository: [https://github.com/Sushegaad/Claude-Skills-Governance-Risk-and-Compliance](https://github.com/Sushegaad/Claude-Skills-Governance-Risk-and-Compliance) (commit `71d8920`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `hipaa-compliance` | core | Expert HIPAA compliance assistant for healthcare and software contexts. Use this skill whenever the user mentions HIPAA, PHI (Protected Health Information), ePHI, covered entities, business associates, healthcare data privacy, medical … | [source](https://github.com/Sushegaad/Claude-Skills-Governance-Risk-and-Compliance/tree/71d8920/plugins/hipaa-compliance/skills/hipaa-compliance) |
+
+## Source: vibeeval/vibecosystem
+
+- Repository: [https://github.com/vibeeval/vibecosystem](https://github.com/vibeeval/vibecosystem) (commit `cea9462`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `mot` | core | System health check (MOT) for skills, agents, hooks, and memory | [source](https://github.com/vibeeval/vibecosystem/tree/cea9462/skills/mot) |
+
+## Source: wanshuiyin/Auto-claude-code-research-in-sleep
+
+- Repository: [https://github.com/wanshuiyin/Auto-claude-code-research-in-sleep](https://github.com/wanshuiyin/Auto-claude-code-research-in-sleep) (commit `eb5c9d7`, retrieved 2026-07-14)
+- License: MIT
+
+| Skill | Tier | What it adds | Upstream |
+|---|---|---|---|
+| `system-profile` | core | Profile a target (script, process, GPU, memory, interconnect) for performance analysis. Use when user says \"profile\", \"benchmark\", \"bottleneck\", or wants performance analysis. | [source](https://github.com/wanshuiyin/Auto-claude-code-research-in-sleep/tree/eb5c9d7/skills/skills-codex/system-profile) |
--- a/references/market.md
+++ b/references/market.md
@@ -0,0 +1,69 @@
+# Market evidence report — clinical-coder
+
+Source: **9 real job ads** (JSearch API, countries: us 9), extracted into the MSSQL evidence store; as of 2026-07-10.
+This report contains extracted, aggregated facts only — no ad text is
+reproduced (copyright / platform terms).
+
+## Seniority distribution
+
+| Seniority | Ads | Share |
+|---|---|---|
+| mid | 7 | 78 % |
+| senior | 1 | 11 % |
+| lead | 1 | 11 % |
+
+## Tools — full market ranking
+
+| # | Item | Ads | Share |
+|---|---|---|---|
+| 1 | EPIC | 3 | 33 % |
+
+## Hard skills — full market ranking
+
+| # | Item | Ads | Share |
+|---|---|---|---|
+| 1 | medical coding | 3 | 33 % |
+
+## Methods — full market ranking
+
+| # | Item | Ads | Share |
+|---|---|---|---|
+
+## Responsibilities — full market ranking
+
+| # | Item | Ads | Share |
+|---|---|---|---|
+| 1 | documentation review | 3 | 33 % |
+
+## Regional breakdown
+
+> **Corpus note:** 9 relevant ads in total — below the 100-ad target for a fully reliable ranking. Percentages above should be read as indicative.
+
+### US (us)
+
+**Insufficient evidence** — 9 ads (minimum for a regional ranking: 30). No ranking is reported for this region.
+
+### UK (gb)
+
+**Insufficient evidence** — 0 ads (minimum for a regional ranking: 30). No ranking is reported for this region.
+
+### EU/DACH (de, at, ch, nl)
+
+**Insufficient evidence** — 0 ads (minimum for a regional ranking: 30). No ranking is reported for this region.
+
+
+## Job title variants in the market
+
+| Title | Ads |
+|---|---|
+| Clinical Coding Specialist | 1 |
+| CODING SPECIALIST - INPATIENT | 1 |
+| Coding Specialist III | 1 |
+| Medical Coder | 1 |
+| Profee Coder III (Radiology (IR), Vascular and Neurosurgery Coding) | 1 |
+| Senior Clinical Coder & Team Lead; DRG/ICD-Expert | 1 |
+| Senior Medical Coding Subject Matter Expert | 1 |
+| Senior Outpatient Coding Specialist, FT Remote | 1 |
+| Sr Inpatient Coder, FT Remote | 1 |
+
+Methodology: entities extracted per ad ({hard_skills, tools, methods, responsibilities, seniority}), normalized, counted as DISTINCT ads per entity; report threshold ≥ 3 ads. Headline sections in skills.md/tools.md use the stricter ≥ 20 % threshold.
--- a/references/profile.md
+++ b/references/profile.md
@@ -0,0 +1,24 @@
+# Occupation profile — clinical coder
+
+- **ESCO URI:** http://data.europa.eu/esco/occupation/6219f0ef-6414-4d01-9221-41ac25dcb409
+- **ESCO code:** 3252.1.1
+- **ISCO-08 group:** 3252 — Medical records and health information technicians
+
+## Description (ESCO)
+
+Clinical coders read patients' medical records. They analyse and interpret medical statements about diseases, injuries and procedures. Clinical coders convert this information into health classification codes in order to calculate treatment reimbursements, to produce statistics and to monitor health care performance.
+
+## Definition
+
+nan
+
+## Alternative labels
+
+- clinical records technician
+- medical coder
+- medical coding officer
+- accredited clinical coder
+- clinical coding officer
+- clinical coding expert
+- accredited medical coder
+- diagnostic coder
--- a/references/skills.md
+++ b/references/skills.md
@@ -0,0 +1,152 @@
+# Competences — clinical coder
+
+Source: ESCO v1.2.1 occupation-skill relations (http://data.europa.eu/esco/occupation/6219f0ef-6414-4d01-9221-41ac25dcb409).
+
+## Essential
+
+- **adhere to organisational guidelines** (skill/competence)
+- **clinical coding** (knowledge)
+- **communicate in healthcare** (skill/competence)
+- **document management** (knowledge)
+- **follow clinical guidelines** (skill/competence)
+- **maintain healthcare user data confidentiality** (skill/competence)
+- **manage healthcare users' data** (skill/competence)
+- **medical terminology** (knowledge)
+- **perform clinical coding procedures** (skill/competence)
+- **professional documentation in health care** (knowledge)
+- **review patient's medical data** (skill/competence)
+- **use electronic health records management system** (skill/competence)
+
+## Optional
+
+- archive healthcare users' records (skill/competence)
+- collect healthcare user's general data (skill/competence)
+- collect statistics on medical records (skill/competence)
+- health care system (knowledge)
+- health records management (knowledge)
+- healthcare analytics (knowledge)
+- human anatomy (knowledge)
+- human physiology (knowledge)
+- identify patients' medical records (skill/competence)
+- manage digital documents (skill/competence)
+- medical informatics (knowledge)
+
+<!-- market-evidence -->
+
+## Market evidence (job-ad analysis, 9 ads, as of 2026-07-10)
+
+Share of analyzed job ads mentioning the item (threshold ≥ 20 %). Source: JSearch/Adzuna APIs.
+
+### Hard skills
+
+- medical coding — **33 %**
+- coding compliance — **22 %**
+- billing compliance — **22 %**
+- medical terminology — **22 %**
+- mentoring — **11 %**
+- pathophysiology — **11 %**
+- pathophysiology knowledge — **11 %**
+- pharmacology — **11 %**
+- pharmacology knowledge — **11 %**
+- medical record review — **11 %**
+- physiology — **11 %**
+- policy interpretation — **11 %**
+- procedure coding — **11 %**
+- quality assurance — **11 %**
+- record abstraction — **11 %**
+- revenue cycle improvement — **11 %**
+- risk adjustment — **11 %**
+- team supervision — **11 %**
+- training — **11 %**
+- audit support — **11 %**
+- billing regulations — **11 %**
+- analytical skills — **11 %**
+- anatomy — **11 %**
+- charge capture — **11 %**
+- claim edits — **11 %**
+- claim issue resolution — **11 %**
+- client engagement management — **11 %**
+- clinical coding — **11 %**
+- clinical documentation improvement — **11 %**
+- clinical documentation interpretation — **11 %**
+- coding — **11 %**
+- coding audit — **11 %**
+- coding query composition — **11 %**
+- compliance — **11 %**
+- cpt-4 procedure coding — **11 %**
+- data abstraction — **11 %**
+- data analysis — **11 %**
+- data validation — **11 %**
+- diagnosis coding — **11 %**
+- disease process knowledge — **11 %**
+- medical record abstraction — **11 %**
+- medical record analysis — **11 %**
+- medical record coding — **11 %**
+- medical billing — **11 %**
+- drg assignment — **11 %**
+- icd-10 coding — **11 %**
+- icd-10 diagnosis coding — **11 %**
+
+### Methods
+
+- ICD-10-CM/PCS coding — **11 %**
+- lean six sigma — **11 %**
+- ahima standards — **11 %**
+- coding compliance guidelines — **11 %**
+- coding audits — **11 %**
+- APR-DRG — **11 %**
+- APR-DRG assignment — **11 %**
+- SOI/ROM assignment — **11 %**
+- revenue cycle management — **11 %**
+- regulatory compliance — **11 %**
+- quality assurance — **11 %**
+- process improvement — **11 %**
+- PPC/MHAC coding — **11 %**
+- POA assignment — **11 %**
+- nlp-based coding review — **11 %**
+
+### Responsibilities
+
+- documentation review — **33 %**
+- code assignment — **22 %**
+- code correction — **11 %**
+- code validation — **11 %**
+- coder supervision — **11 %**
+- coder training — **11 %**
+- coding advice provision — **11 %**
+- coding and billing charge processing — **11 %**
+- clinical documentation interpretation — **11 %**
+- client engagement management — **11 %**
+- audit collaboration — **11 %**
+- account coding — **11 %**
+- billing support — **11 %**
+- billing workflow support — **11 %**
+- case review — **11 %**
+- billing change procedure development — **11 %**
+- billing issue communication — **11 %**
+- edit discrepancy consultation — **11 %**
+- leadership briefing — **11 %**
+- medical record coding — **11 %**
+- coding guidance provision — **11 %**
+- coding guideline adherence — **11 %**
+- compliance review support — **11 %**
+- communication with departments — **11 %**
+- communication with staff — **11 %**
+- documentation clarification — **11 %**
+- discrepancy resolution — **11 %**
+- diagnosis application — **11 %**
+- policy document authoring — **11 %**
+- modifier application — **11 %**
+- practice improvement — **11 %**
+- provider education — **11 %**
+- physician query completion — **11 %**
+- physician query support — **11 %**
+- quality monitoring — **11 %**
+- record abstraction — **11 %**
+- reimbursement validation — **11 %**
+- staff training participation — **11 %**
+- task prioritization — **11 %**
+- training on coding changes — **11 %**
+- work prioritization — **11 %**
+
+<!-- market-evidence -->
--- a/references/tasks.md
+++ b/references/tasks.md
@@ -0,0 +1,42 @@
+# Tasks & work activities — clinical coder
+
+Source: O*NET 30.3, occupation 29-2072.00 (Medical Records Specialists) — manual nearest-occupation mapping via ISCO group 3252; the official ESCO crosswalk has no entry for this ESCO occupation.
+
+## Task statements
+
+- **[nan]** Assign the patient to diagnosis-related groups (DRGs), using appropriate computer software.
+- **[nan]** Compile and maintain patients' medical records to document condition and treatment and to provide data for research or cost control and care improvement efforts.
+- **[nan]** Consult classification manuals to locate information about disease processes.
+- **[nan]** Enter data, such as demographic characteristics, history and extent of disease, diagnostic procedures, or treatment into computer.
+- **[nan]** Identify, compile, abstract, and code patient data, using standard classification systems.
+- **[nan]** Maintain or operate a variety of health record indexes or storage and retrieval systems to collect, classify, store, or analyze information.
+- **[nan]** Post medical insurance billings.
+- **[nan]** Process and prepare business or government forms.
+- **[nan]** Process patient admission or discharge documents.
+- **[nan]** Protect the security of medical records to ensure that confidentiality is maintained.
+- **[nan]** Release information to persons or agencies according to regulations.
+- **[nan]** Resolve or clarify codes or diagnoses with conflicting, missing, or unclear information by consulting with doctors or others or by participating in the coding team's regular meetings.
+- **[nan]** Retrieve patient medical records for physicians, technicians, or other medical personnel.
+- **[nan]** Review records for completeness, accuracy, and compliance with regulations.
+- **[nan]** Scan patients' health records into electronic formats.
+- **[nan]** Schedule medical appointments for patients.
+- **[nan]** Transcribe medical reports.
+
+## Detailed work activities
+
+- Classify materials according to standard systems.
+- Code data or other information.
+- Collect medical information from patients, family members, or other medical professionals.
+- Communicate with management or other staff to resolve problems.
+- Enter patient or treatment data into computers.
+- Maintain medical facility records.
+- Maintain medical or professional knowledge.
+- Maintain security.
+- Monitor medical facility activities to ensure adherence to standards or regulations.
+- Perform clerical work in medical settings.
+- Prepare official health documents or records.
+- Process healthcare paperwork.
+- Process medical billing information.
+- Record patient medical histories.
+- Schedule appointments.
+- Schedule patient procedures or appointments.
--- a/references/tools.md
+++ b/references/tools.md
@@ -0,0 +1,137 @@
+# Tools & technology — clinical coder
+
+Source: O*NET 30.3, occupation 29-2072.00 (Medical Records Specialists) — manual nearest-occupation mapping via ISCO group 3252; the official ESCO crosswalk has no entry for this ESCO occupation.
+
+| Software | Category | Hot technology |
+|---|---|---|
+| eClinicalWorks EHR software | Medical software | yes |
+| Epic Systems | Medical software | yes |
+| Henry Schein Dentrix | Medical software | yes |
+| IBM SPSS Statistics | Analytical or scientific software | yes |
+| MEDITECH software | Medical software | yes |
+| Microsoft Access | Data base user interface and query software | yes |
+| Microsoft Excel | Spreadsheet software | yes |
+| Microsoft Office software | Office suite software | yes |
+| Microsoft Outlook | Electronic mail software | yes |
+| Microsoft PowerPoint | Presentation software | yes |
+| Microsoft Project | Project management software | yes |
+| Microsoft SharePoint | Document management software | yes |
+| Microsoft SQL Server | Data base user interface and query software | yes |
+| Microsoft SQL Server Reporting Services SSRS | Data base reporting software | yes |
+| Microsoft Visio | Process mapping and design software | yes |
+| Microsoft Visual Basic | Development environment software | yes |
+| Microsoft Windows | Operating system software | yes |
+| Microsoft Word | Word processing software | yes |
+| R | Object or component oriented development software | yes |
+| SAS | Analytical or scientific software | yes |
+| Structured query language SQL | Data base user interface and query software | yes |
+| Tableau | Business intelligence and data analysis software | yes |
+| Teradata Database | Data base management system software | yes |
+| 3M Encoder | Categorization or classification software |  |
+| Allscripts EHR | Medical software |  |
+| Amazing Charts | Medical software |  |
+| American Medical Association CodeManager | Categorization or classification software |  |
+| Azalea Health Azalea EHR | Medical software |  |
+| Billing software | Billing and invoicing software |  |
+| Coding database software | Information retrieval or search software |  |
+| ComChart EMR | Medical software |  |
+| Computerized indexing systems | Categorization or classification software |  |
+| Corel WordPerfect Office Suite | Office suite software |  |
+| Cyber Records MediChart Express | Voice recognition software |  |
+| Digital Imaging Communications in Medicine DICOM medical imaging software | Medical software |  |
+| DRG grouping software | Categorization or classification software |  |
+| EHS CareRevolution | Medical software |  |
+| Eko | Desktop communications software |  |
+| Electronic medical record EMR software | Medical software |  |
+| Electronic medical record EMR systems | Medical software |  |
+| Email software | Electronic mail software |  |
+| eMDs Practice Partner | Medical software |  |
+| e-MDs topsChart | Medical software |  |
+| Encoded archival system EAD | Data base user interface and query software |  |
+| Encoder software | Transaction security and virus protection software |  |
+| EndoSoft | Data base user interface and query software |  |
+| Entity Management Software | Data base user interface and query software |  |
+| Fox Meadows Accent Data Manager | Document management software |  |
+| Fox Meadows ChartingPlus | Data base user interface and query software |  |
+| Fox Meadows EncounterManager | Medical software |  |
+| GE Healthcare Logician | Medical software |  |
+| Graphics software | Graphics or photo imaging software |  |
+| Greenway Medical Technologies PrimeChart | Medical software |  |
+| Health Care Data HealthProbe | Medical software |  |
+| Healthcare common procedure coding system HCPCS | Medical software |  |
+| HMS | Medical software |  |
+| Holt Systems eMedRec | Medical software |  |
+| Hyland Software OnBase | Document management software |  |
+| IBM Cognos Impromptu | Business intelligence and data analysis software |  |
+| IBM InfoSphere DataStage | Enterprise application integration software |  |
+| IBM Lotus 1-2-3 | Spreadsheet software |  |
+| IDX Systems IDXtend | Medical software |  |
+| IDX Systems Patient Chart Tracking | Document management software |  |
+| Information Resource Products Clinical Coding Expert | Expert system software |  |
+| Laserfiche software | Document management software |  |
+| LeonardoMD Renaissance | Medical software |  |
+| MD Synergy Medical Appointment Scheduling | Calendar and scheduling software |  |
+| Mediasoft mediOFFICE | Medical software |  |
+| Medical condition coding software | Medical software |  |
+| Medical procedure coding software | Medical software |  |
+| MedicWare EMR | Medical software |  |
+| MedStar Systems DrWorks | Medical software |  |
+| Microsoft Dynamics | Enterprise resource planning ERP software |  |
+| Microsoft Exchange | Electronic mail software |  |
+| Microsoft Visual Basic Scripting Edition VBScript | Development environment software |  |
+| MicroStrategy | Business intelligence and data analysis software |  |
+| Minitab | Analytical or scientific software |  |
+| NCG Medical Systems d-Chart | Medical software |  |
+| NDCMedisoft | Accounting software |  |
+| NextGen Healthcare Information Systems EMR | Medical software |  |
+| PCC EHR | Medical software |  |
+| PCC Pediatric Partner | Medical software |  |
+| PowerMed | Medical software |  |
+| Practice Partner Patient Records | Medical software |  |
+| Purkinje Dossier | Data base user interface and query software |  |
+| Qlik Tech QlikView | Business intelligence and data analysis software |  |
+| QMSoftware Receivables Management | Accounting software |  |
+| Quest Erwin Data Modeler | Metadata management software |  |
+| SAP Business Objects | Enterprise resource planning ERP software |  |
+| SAP Crystal Reports | Data base reporting software |  |
+| ScanSoft Naturally Speaking | Voice recognition software |  |
+| Scantron imaging software | Optical character reader OCR or scanning software |  |
+| Scheduling software | Calendar and scheduling software |  |
+| Siemens Soarian Financials | Accounting software |  |
+| Siemens Soarian Scheduling | Calendar and scheduling software |  |
+| SOAPware EMR | Medical software |  |
+| SoftMed ChartLocater | Document management software |  |
+| SoftMed ChartRelease | Data base reporting software |  |
+| SoftMed ChartReserve | Document management software |  |
+| Speech recognition software | Voice recognition software |  |
+| STAT! Systems QD Clinical | Medical software |  |
+| StataCorp Stata | Analytical or scientific software |  |
+| SynaMed EMR | Medical software |  |
+| VantageMed ChartKeeper | Medical software |  |
+| Virtual private networking VPN software | Network security and virtual private network VPN equipment software |  |
+| Visionary Medical Systems Visionary OFFICE PM | Medical software |  |
+| Voice dictation software | Voice recognition software |  |
+| Web browser software | Internet browser software |  |
+| Welford Chart Notes | Medical software |  |
+
+<!-- market-evidence -->
+
+## Market evidence (job-ad analysis, 9 ads, as of 2026-07-10)
+
+Share of analyzed job ads mentioning the item (threshold ≥ 20 %). Source: JSearch/Adzuna APIs.
+
+### Tools
+
+- EPIC — **33 %**
+- 3M HDM — **22 %**
+- 360 Encompass — **11 %**
+- 3M Coding and Reimbursement System — **11 %**
+- electronic health record (EHR) systems — **11 %**
+- DoD Instruction 6040.42 — **11 %**
+- Composite Health Care System (CHCS) — **11 %**
+- TEAMS — **11 %**
+- MHS GENESIS — **11 %**
+- Microsoft Office — **11 %**
+- Meditech — **11 %**
+
+<!-- market-evidence -->