pyhealth SKILL.md skillA
pyhealth from jaechang-hits/sciagent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add jaechang-hits/sciagent-skills/pyhealth@git:20260528.a0c28a2Pins git:20260528.a0c28a2 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- jaechang-hits/sciagent-skills
- Path
skills/scientific-computing/pyhealth/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260528.a0c28a2, committed May 28, 2026
- Size
- 19,014 bytes
- Repository stars
- 381
- License
- a license file GitHub does not identify
Python library for healthcare ML on EHR data: process MIMIC-III/IV, eICU, OMOP-CDM; encode medical codes (ICD, ATC, NDC); build patient-level datasets; train Transformer, RETAIN, GRASP, MedBERT for mortality, drug recommendation, readmission, diagnosis prediction. Alternatives: FIDDLE (preprocessing), clinical-longformer (clinical NLP), ehr-ml (embeddings).
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# PyHealth ## Overview PyHealth provides an end-to-end pipeline for healthcare ML on EHR data: data loading → medical code processing → patient-level dataset construction → model training → evaluation. It natively supports MIMIC-III, MIMIC-IV, eICU-CRD, and OMOP-CDM structured databases, and handles the idiosyncratic data formats of each. Medical codes (ICD-9, ICD-10, ATC, NDC, SNOMED) are organized in a hierarchical code system that supports code-level embedding and cross-ontology mapping. Pre-built tasks — mortality prediction, drug recommendation, readmission, length-of-stay, diagnosis code prediction — can be instantiated in a few lines. Custom tasks follow a standardized interface. ## When to Use - Training clinical outcome prediction models (mortality, readmission, LOS) from MIMIC-III or MIMIC-IV - Building drug recommendation or drug interaction prediction models using ATC code hierarchy - Processing OMOP-CDM formatted data from institutional EHR systems for ML - Using pretrained clinical models (RETAIN, GRASP, MedBERT) as baselines on healthcare benchmarks - Constructing patient visit sequences with temporal structure for RNN/Transformer models …
Read the whole file at its exact version.
How to install
mdr add jaechang-hits/sciagent-skills/pyhealth@sha256:b759f0c01a7f04feThe line at the top of this page pins the label git:20260528.a0c28a2, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_ixpjxo73udaij2it)
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Versions
The registry has recorded 1 version of this file, committed on May 28, 2026.
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (19014 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
jaechang-hits/sciagent-skills · 381 stars · license a license file GitHub does not identify · pushed 2026-10-16 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ixpjxo73udaij2it GET https://markdownregistry.com/api/v1/resolve?ref=jaechang-hits/sciagent-skills/pyhealth GET https://markdownregistry.com/api/v1/blob/b759f0c01a7f04fe71e545daead7d5ce67d9cc511cccca80b6f13db4adf7d5e2
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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