Skill UI

This utility separates clinical entity extraction from clinical coding. It processes de-identified text, utilizing OpenMed to identify key clinical spans. These spans are then programmatically mapped into structured FHIR R4 resources (like Condition, Observation, and MedicationStatement) and assembled into a Bundle. This process ensures deterministic, standardized data output suitable for interoperability and medical record structuring.

Utilizes OpenMed's analyze_text to perform sophisticated Named-Entity Recognition (NER) on clinical and biomedical text. This tool extracts structured entities such as diseases, drugs, anatomy, genes, and proteins. It provides precise character spans and model confidence scores, making it essential for building robust, privacy-first clinical Natural Language Processing (NLP) pipelines.

This skill automatically detects and extracts tabular laboratory panels from diverse sources, including scanned images, photos, and delimited files (CSV/TSV). It converts complex visual data into clean, structured rows, capturing the test name, measured value, unit, reference range, and abnormal flag. It is essential for preparing medical data for subsequent standardization using LOINC and UCUM, and for mapping into FHIR resources.

This skill facilitates the ingestion of unstructured clinical notes and reports from FHIR R4 EHR APIs (e.g., Epic, Cerner). It handles complex tasks including paginating large search results, decoding base64 attachments (PDF, text), and extracting narrative content. The extracted text is then passed to the OpenMed pipeline for HIPAA-compliant de-identification and subsequent NLP analysis, enabling structured data insights from raw clinical records.

A comprehensive skill for AI agents to perform advanced filesystem operations. It provides features for intelligent file listing with deep filtering, powerful content and pattern searching, safe batch file copying, and detailed directory analysis (statistics, tree visualization). Ideal for code analysis, system auditing, and managing project assets.

Synthea generates statistically realistic, fully synthetic patient records in multiple standards (FHIR R4, C-CDA, CSV). This tool is essential for developers and researchers needing safe, shareable test data for OpenMed pipelines, CI fixtures, or specialized de-identification leakage gate test sets. It ensures zero risk of exposing real Protected Health Information (PHI).

A comprehensive guide for performing reverse engineering using Ghidra. This skill is essential for scenarios where commercial tools like IDA are unavailable, or when performing large-scale, automated headless analysis. It covers the entire workflow, from project setup and function decompilation to advanced headless scripting and integration with other exploit tools.

This tool performs a comprehensive analysis of AI configuration file evolution within a Git repository. It tracks when specific AI configs were first introduced, charts monthly commit velocity related to AI features, highlights key PRs that shaped the development, and synthesizes the project's AI maturity phases. Ideal for mapping AI adoption timelines and assessing technical maturity.

Automates the creation of isolated Git worktrees for safe and efficient feature development. This process handles branch validation, optimizes dependency installation (e.g., symlinking node_modules), runs background verification tests, and provides guidance for database isolation, ensuring developers always work in a clean, separated environment.

A robust tool for batch cleanup of stale or merged Git worktrees. It automatically identifies and safely removes merged branches, calculates precise disk usage per worktree, and provides an interactive review process for unmerged or protected branches. Essential for maintaining clean repository environments.

This tool provides a comprehensive and safe mechanism to remove a git worktree. It includes multiple safety checks, such as verifying if the branch is protected, checking for uncommitted changes, and confirming merge status. Furthermore, it guides the user through the entire cleanup process, including deleting local and remote branches, pruning references, and reminding about associated database cleanup.

This skill loads and parses a structured handoff document, enabling the user to resume work from a previous session. It systematically extracts the project's scope, files involved, completed tasks, key discoveries, and next steps. Crucially, it summarizes its understanding and mandates user confirmation before taking any action, ensuring accurate context and continuity.