Agent skills by maziyarpanahi, page 2

Searches and fetches PubMed and PMC via NCBI E-utilities (ESearch then EFetch/ESummary) to gather biomedical evidence and build text corpora.

maziyarpanahi/openmed

Normalizes drug mentions extracted by OpenMed to RxNorm RxCUIs using the free public RxNav/RxNorm REST API.

maziyarpanahi/openmed

Parses C-CDA / CCD XML clinical documents to extract human-readable section narrative plus coded entries, keyed by section LOINC codes and templateIds.

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

Parse laboratory values and reference ranges from clinical text and flag results as low, normal, high, or critical with OpenMed.

maziyarpanahi/openmed

Parses free-text clinical-trial eligibility criteria into structured inclusion and exclusion logic, then matches them against patient facts that OpenMed extracted.

maziyarpanahi/openmed

Select an on-device OpenMed PII model from the committed registry by language, runtime format, and size budget, then require recall validation before deployment.

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

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…

maziyarpanahi/openmed

Deduplicate and reconcile OpenMed-extracted conditions into one clean active problem list with clinical status (active / resolved / historical).

maziyarpanahi/openmed

Reversibly de-identify clinical text with OpenMed and later restore the original PHI from a saved mapping.

maziyarpanahi/openmed

Structures adverse-event mentions that OpenMed extracts into FAERS / ICH E2B(R3) reportable fields — suspect drug, reaction (MedDRA PT), seriousness criteria, and outcome.

maziyarpanahi/openmed

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…

maziyarpanahi/openmed

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…

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

Extract arbitrary, custom entity types from clinical or biomedical text with no fine-tuning using OpenMed's GLiNER / GLiNER2 zero-shot support.

maziyarpanahi/openmed

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…

maziyarpanahi/openmed

Searches ClinicalTrials.gov for studies by condition, intervention, and recruitment status using the modern v2 REST API with cursor (pageToken) pagination.

maziyarpanahi/openmed

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…

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

Apply consistent per-patient date shifting in OpenMed that preserves intervals between events while satisfying HIPAA Safe Harbor's date rule.

maziyarpanahi/openmed

Converts free-text radiology narratives into structured findings and impression — with measurements, laterality, anatomy, and follow-up recommendations — after OpenMed NER.

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

Validate FHIR R4 resources and Bundles against US Core / USCDI profiles with the official HL7 FHIR validator before submitting to an EHR.

maziyarpanahi/openmed

Collect a bounded set of de-identification policy decisions and write a deterministic, reviewable DEID-POLICY.md from the versioned local template.

maziyarpanahi/openmed