Python · Clinical and healthcare research

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

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

Reads, edits, anonymizes and converts DICOM medical imaging files with pydicom, including pixel data extraction and compressed transfer syntaxes.

davila7/claude-code-templates

Queries the openFDA API from Python for drug, device, food and veterinary data: adverse events, recalls, labels, approvals, NDC and UNII lookups.

davila7/claude-code-templates

Processes digital pathology whole slide images with histolab: tissue detection, mask creation, tile extraction and dataset preparation for deep learning.

davila7/claude-code-templates

Processes physiological signals with NeuroKit2 in Python: ECG, PPG, EEG, EDA, respiration, EMG and EOG, including HRV, events and complexity measures.

davila7/claude-code-templates

Builds machine learning pipelines on clinical data with PyHealth: EHR datasets, prediction tasks, medical code mapping, healthcare models and evaluation.

davila7/claude-code-templates

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

Searches and reads biomedical papers, FDA/PMDA/EMA documents, clinical trials, and protein records with the GXL Paperclip CLI and Python SDK.

K-Dense-AI/scientific-agent-skills

A skill your agent uses when querying biomedical databases (UniProt, ClinVar, gnomAD, PDB, Reactome, Open Targets, etc.) via the Biomni AgentCore Gateway MCP server.

aws-samples/amazon-bedrock-agents-healthcare-lifesciences

Build clinical/healthcare deep-learning pipelines with PyHealth — loading EHR/signal/imaging datasets (MIMIC-III/IV, eICU, OMOP, SleepEDF, ChestXray14, EHRShot), defining tasks (mortality…

BioTender-max/awesome-bio-agent-skills

End-to-end R workflow to simulate individual patient data (IPD) for a registered clinical trial using a g-formula causal-DAG simulator.

RConsortium/pharma-skills

Comprehensive cheat sheet for using the Pathling Python API.

aehrc/pathling

Clinical-grade PII/PHI detection and de-identification for healthcare text data.

aipoch/medical-research-skills

Register, segment, filter, resample 3D medical images (MRI, CT, microscopy) via SimpleITK Python; DICOM, NIfTI, multi-modal.

jaechang-hits/SciAgent-Skills

WSI processing for digital pathology. An agent skill from jaechang-hits/SciAgent-Skills.

jaechang-hits/SciAgent-Skills

Pure Python DICOM for medical imaging (CT, MRI, X-ray, ultrasound).

jaechang-hits/SciAgent-Skills

A Python library for working with DICOM (Digital Imaging and Communications in Medicine) files.

aipoch/medical-research-skills

Complete survival analysis library in Python. An agent skill from brycewang-stanford/Auto-Empirical-Research-Skills.

brycewang-stanford/Auto-Empirical-Research-Skills