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SkillsMP a collecté 74 skills depuis maziyarpanahi/openmed. Ouvrez un skill pour examiner sa source et ses détails.
maziyarpanahi/openmedAffichage de 34 skills collectés sur 74.
Extracts social determinants of health (SDOH) — housing instability, food insecurity, unemployment, transportation barriers, social isolation, financial strain — from clinical narrative and maps the spans to ICD-10-CM Z-codes (Z55–Z65). Use after running…
Langue du texte source : anglais
Fetches and pages FHIR R4 resources (Patient, DocumentReference, DiagnosticReport, Observation, Condition) from a FHIR REST server, decodes base64 attachments, and extracts clinical narrative for OpenMed. Use before OpenMed processing when pulling charts from…
Langue du texte source : anglais
Add a CI gate that fails the build when an OpenMed de-identification model's recall on a held-out PHI set drops below threshold or any critical identifier leaks. Use when the user wants a pytest test or CLI step that exits nonzero on de-id regression, wants…
Langue du texte source : anglais
Generates synthetic but realistic patient records (FHIR R4 bundles, C-CDA documents, CSV) with MITRE Synthea for development, CI fixtures, demos, and leakage-gate test sets — zero real PHI. Use when you need safe, shareable test data for an OpenMed pipeline,…
Langue du texte source : anglais
Replace detected PHI with realistic, type-matched fake values in OpenMed so clinical notes stay readable and parseable instead of full of [REDACTED] markers. Use when the user wants surrogate names, MRNs, addresses, or dates rather than opaque masks, needs…
Langue du texte source : anglais
Turn scanned faxes, images, and CSV/CDA exports into clean text ready for OpenMed de-identification and NER, fully on-device. Use when the user has clinical documents (image scans, photographed/faxed notes, tabular CSV/TSV exports, C-CDA XML) and needs OCR or…
Langue du texte source : anglais
Links entities extracted by OpenMed to UMLS Metathesaurus CUIs using the USER'S OWN UTS API key, with nothing from the Metathesaurus bundled or cached. Use when the user wants to normalize concepts across vocabularies to a single CUI, resolve synonyms via the…
Langue du texte source : anglais
Load OpenMed clinical/biomedical NER models from the Hugging Face Hub or a local path and reuse them efficiently across calls. Use when the user wants to load an OpenMed model, control the model cache, run fully offline after a one-time download, reuse a…
Langue du texte source : anglais
Maps laboratory and clinical observation names extracted by OpenMed to LOINC codes using the public Regenstrief LOINC and FHIR terminology APIs. Use when the user wants to code lab tests, vital signs, or observations to LOINC, resolve a test name plus…
Langue du texte source : anglais
Maps clinical concept spans extracted by OpenMed to SNOMED CT concepts through a USER-SUPPLIED terminology server (the user's own Ontoserver, Snowstorm, or UMLS/UTS), never a bundled vocabulary. Use when the user wants to code findings, disorders, procedures,…
Langue du texte source : anglais
Searches and fetches PubMed and PMC via NCBI E-utilities (ESearch then EFetch/ESummary) to gather biomedical evidence and build text corpora. Use when the user wants citations for a condition or drug, abstracts to summarize, MeSH-based searches, or a corpus…
Langue du texte source : anglais
Normalizes drug mentions extracted by OpenMed to RxNorm RxCUIs using the free public RxNav/RxNorm REST API. Use when the user wants to code, standardize, or de-duplicate medication names, resolve a brand/generic/ingredient to a stable RxCUI, link…
Langue du texte source : anglais
Parses C-CDA / CCD XML clinical documents to extract human-readable section narrative plus coded entries, keyed by section LOINC codes and templateIds. Use before OpenMed processing when ingesting C-CDA R2.1 documents (CCD, Discharge Summary, H&P,…
Langue du texte source : anglais
Decodes pipe-delimited HL7 v2.x messages (ADT, ORU, MDM, ORM) into structured segments/fields/components and surfaces OBX-5 and NTE-3 free-text narrative for OpenMed. Use before OpenMed processing when ingesting HL7 v2 feeds from an interface engine,…
Langue du texte source : anglais
Parse laboratory values and reference ranges from clinical text and flag results as low, normal, high, or critical with OpenMed. Use when the user needs to interpret lab results, compute abnormal flags, parse reference ranges like "135-145" or "<5", honor an…
Langue du texte source : anglais
Parses free-text clinical-trial eligibility criteria into structured inclusion and exclusion logic, then matches them against patient facts that OpenMed extracted. Use when the user wants to turn a ClinicalTrials.gov eligibility block into machine-readable…
Langue du texte source : anglais
Apply GDPR-grade pseudonymization to clinical or personal text with OpenMed, keeping a separately-held re-linkage key so the data can be controlled-re-linked later. Use when the user must process EU personal/health data under GDPR, asks for pseudonymization…
Langue du texte source : anglais
Looks up FDA drug labels, NDC directory entries, indications, boxed warnings, and recalls/enforcement actions via the free public OpenFDA API to enrich drugs that OpenMed extracts. Use when the user wants the prescribing information for a drug, its boxed…
Langue du texte source : anglais
Call a user-supplied FHIR terminology server ($validate-code, $expand, $lookup, $translate) to validate and expand clinical codes without bundling restricted vocabulary (SNOMED CT, RxNorm, LOINC, ICD-10) into OpenMed. Covers a thin local client, ValueSet…
Langue du texte source : anglais
Deduplicate and reconcile OpenMed-extracted conditions into one clean active problem list with clinical status (active / resolved / historical). Use after NER and context resolution when the user wants a problem list, condition reconciliation, dedup of…
Langue du texte source : anglais
Reversibly de-identify clinical text with OpenMed and later restore the original PHI from a saved mapping. Use when the user needs pseudonymization rather than permanent anonymization, wants to mask PHI now and re-link it later under authorization (e.g.…
Langue du texte source : anglais
Structures adverse-event mentions that OpenMed extracts into FAERS / ICH E2B(R3) reportable fields — suspect drug, reaction (MedDRA PT), seriousness criteria, and outcome. Use when the user needs to build an individual case safety report (ICSR), populate a…
Langue du texte source : anglais
Assign negation, temporality, and uncertainty (the ConText axes) to clinical entities extracted by OpenMed, so "denies chest pain" is not counted as chest pain and "history of MI" is not counted as an active MI. Use after NER when the user needs assertion…
Langue du texte source : anglais
Run expert-determination-style quasi-identifier risk scoring (k-anonymity, l-diversity) plus OpenMed's empirical re-identification attack on a de-identified dataset, then document residual risk in a defensible memo. Use when the user needs HIPAA Expert…
Langue du texte source : anglais
Run OpenMed models fully on-device with the MLX (Apple Silicon), CoreML (iOS/macOS), or ONNX/WebGPU (cross-platform/browser) backends, including convert-quantize-run workflows. Use when the user wants to deploy OpenMed at the edge, run NER/de-id on Apple…
Langue du texte source : anglais
Extract arbitrary, custom entity types from clinical or biomedical text with no fine-tuning using OpenMed's GLiNER / GLiNER2 zero-shot support. Use when the user wants to define their own labels on the fly (e.g. Drug, Symptom, Device, Procedure), has no…
Langue du texte source : anglais
Scaffold a SMART-on-FHIR app (SMART App Launch v2 — EHR launch and standalone launch, OAuth2 PKCE, scopes, token handling, fhirContext) so an OpenMed-powered tool can run inside Epic or Cerner/Oracle Health. Covers the .well-known/smart-configuration…
Langue du texte source : anglais
Searches ClinicalTrials.gov for studies by condition, intervention, and recruitment status using the modern v2 REST API with cursor (pageToken) pagination. Use when the user wants to find trials for a diagnosis or drug, screen patients against open studies,…
Langue du texte source : anglais
Split a clinical note into canonical sections (Chief Complaint, HPI, PMH, Medications, Allergies, Assessment & Plan, etc.) before running OpenMed NER or de-identification, so section context sharpens downstream precision. Use when the user has a free-text…
Langue du texte source : anglais
Stand up OpenMed's FastAPI REST service for clinical NER, PII extraction, and de-identification, with health checks, model keep-alive/unload, optional dynamic batching, and no-PHI logging. Use when the user wants to serve OpenMed over HTTP, deploy a de-id/NER…
Langue du texte source : anglais
Apply consistent per-patient date shifting in OpenMed that preserves intervals between events while satisfying HIPAA Safe Harbor's date rule. Use when the user needs to de-identify dates but keep temporal structure for research, shift all dates by the same…
Langue du texte source : anglais
Converts free-text radiology narratives into structured findings and impression — with measurements, laterality, anatomy, and follow-up recommendations — after OpenMed NER. Use when the user has a CT/MRI/X-ray/ultrasound/mammography report and needs the…
Langue du texte source : anglais
Produces structured, citation-anchored summaries of clinical notes — one-liner, hospital course, and problem-oriented views — where every claim cites a source span so nothing is hallucinated. Use after de-identifying notes when the user wants a discharge…
Langue du texte source : anglais
Validate FHIR R4 resources and Bundles against US Core / USCDI profiles with the official HL7 FHIR validator before submitting to an EHR. Covers running validator_cli.jar (or the public validator.fhir.org), declaring meta.profile, must-support elements,…
Langue du texte source : anglais