defining-cohort-phenotypes
把文本证据纳入可移植的表型定义，方便研究与跨机构复现分析。
依赖 OMOP 映射与源数据质量，迁移或跨库应用需谨慎验证。
在 OMOP CDM 上编写可执行表型与队列定义，结合 OpenMed 的 NLP 特征。
把“哪些病人属于某个队列”写成可以在 OMOP CDM 上执行的可计算表型，包含 concept set 和入选逻辑，能导出为 ATLAS/CIRCE 风格的 JSON。常用于队列研究、复用 PheKB/OHDSI 定义，或把 OpenMed 提取的 NLP 特征补到基于代码的筛选里。特点是把结构化代码和文本抽取特征合并，便于在不同数据库上重用。
▸ 展开 SKILL.md 英文原文
Authors computable phenotype and cohort definitions in the OHDSI ATLAS / CIRCE style over the OMOP CDM, combining standard concept sets with NLP-derived features that OpenMed extracts. Use when the user wants to define a patient cohort, write a computable phenotype, reuse PheKB or OHDSI Phenotype Library logic, build concept sets, or augment code-based criteria with text features. Trigger keywords: phenotype, cohort definition, OHDSI, ATLAS, CIRCE, OMOP CDM, concept set, PheKB, Phenotype Library, eMERGE, computable phenotype. Pairs adjacent to OpenMed: NLP features from openmed.analyze_text augment code-based phenotypes for entities that are poorly captured by structured codes. OMOP CDM and OHDSI tools are open source; restricted vocabularies (SNOMED, CPT) are user-supplied.
帮我安装这个 skill：https://raw.githubusercontent.com/maziyarpanahi/openmed/master/skills/defining-cohort-phenotypes/SKILL.mdcurl -fsSL "https://raw.githubusercontent.com/maziyarpanahi/openmed/master/skills/defining-cohort-phenotypes/SKILL.md"# Defining cohort phenotypes (OHDSI / OMOP CDM) A **computable phenotype** is a portable, executable definition of "which patients have condition X" — concept sets plus inclusion logic that runs against any **OMOP CDM**-compliant database. In the OHDSI stack, ATLAS authors these visually, **CIRCE** serializes them to a standardized **JSON** representation, and that JSON compiles to database-specific SQL. This skill helps you author such definitions and **augment them with NLP features** that OpenMed extracts from clinical text — exactly the signals that structured codes miss. OMOP CDM, ATLAS, CIRCE, and the OHDSI Phenotype Library are open source. The *vocabulary content* you reference (SN