Research & Science · By maziyarpanahi

Suggests candidate ICD-10-CM diagnosis and ICD-10-PCS procedure codes for clinical text extracted by OpenMed, with rationale for a certified coder to review.

maziyarpanahi/openmed

Maps OpenMed-extracted, terminology-coded conditions, drugs and measurements into OMOP CDM v5.4 tables for OHDSI and ATLAS analytics.

maziyarpanahi/openmed

Finds social risks such as housing instability or food insecurity in clinical notes and proposes matching ICD-10-CM Z-codes for a coder to confirm.

maziyarpanahi/openmed

Annotates VCF variants and normalizes HGVS nomenclature with public, license-free annotators (Ensembl VEP REST, VEP/SnpEff/ANNOVAR offline) and links variants to gnomAD population frequencies and…

maziyarpanahi/openmed

Packages standalone FHIR R4 resources from OpenMed output into one transaction Bundle with stable fullUrls and rewritten references, ready to post to a FHIR server.

maziyarpanahi/openmed

Generates and verifies 21 CFR Part 11-style audit trails — who/what/when, electronic signatures, and tamper-evidence — for OpenMed pipelines in GxP and clinical-trial (GCP) settings.

maziyarpanahi/openmed

Assemble a chronological patient timeline from OpenMed-extracted clinical events, normalizing dates and resolving relative time expressions on-device.

maziyarpanahi/openmed

Orient and bootstrap any project that uses OpenMed, the on-device clinical and biomedical NLP library, for named-entity recognition, PHI de-identification, FHIR export, and evaluation.

maziyarpanahi/openmed

Compute electronic clinical quality measures (eCQMs) over structured data using CQL/QDM logic, lifting note-derived numerator and exclusion facts from OpenMed to improve measure capture.

maziyarpanahi/openmed

Kick off and harvest a FHIR Bulk Data $export (system-, group-, or patient-level) and stream the resulting NDJSON into a batch OpenMed de-identification + NER pipeline at cohort scale.

maziyarpanahi/openmed

Convert OpenMed NER output (entities from openmed.analyzetext) into FHIR R4 resources — Condition, MedicationStatement, Observation — using OpenMed's built-in FHIR R4 export helpers in…

maziyarpanahi/openmed

Extract clinical entities from synthetic or already de-identified text with OpenMed and map them into deterministic FHIR R4 resources and a Bundle.

maziyarpanahi/openmed

Reads DICOM file headers and DICOM-SR (Structured Report) content to pull study/series metadata and embedded report text, and flags PHI carried in header tags.

maziyarpanahi/openmed

Fetches and pages FHIR R4 resources (Patient, DocumentReference, DiagnosticReport, Observation, Condition) from a FHIR REST server, decodes base64 attachments, and extracts clinical narrative for…

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

Maps laboratory and clinical observation names extracted by OpenMed to LOINC codes using the public Regenstrief LOINC and FHIR terminology APIs.

maziyarpanahi/openmed

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.

maziyarpanahi/openmed

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

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

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

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

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

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

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