ingesting-clinical-documents SKILL.md skillA
ingesting-clinical-documents from maziyarpanahi/openmed is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add maziyarpanahi/openmed/ingesting-clinical-documents@v1.0Pins v1.0 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- maziyarpanahi/openmed
- Path
skills/ingesting-clinical-documents/SKILL.md- Versions recorded
- 1
- Latest version
- v1.0, committed Jul 20, 2026
- Size
- 8,031 bytes
- Repository stars
- 5,784
- License
- Apache-2.0
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 structured intake before openmed.deidentify and openmed.analyze_text, asks about openmed.multimodal, OCR engines (Tesseract / PaddleOCR), tabular redaction, or layout and reading order. Covers the verified ocr() and redact_document()…
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
# Ingesting Clinical Documents Clinical text often arrives as scanned faxes, photographed notes, CSV exports, or C-CDA XML — not plain text. `openmed.multimodal` converts these into a normalized `ExtractedDocument` (clean text + character-offset → source-location spans) so you can run de-identification and NER. It runs **on-device**: OCR backends are local, no document leaves the machine. ## When to use - You have **images / scanned faxes** of clinical notes and need text out (OCR). - You have **CSV/TSV** patient exports that need column-aware handling. - You have **C-CDA XML** to flatten into text. - You are building the **intake stage** that feeds `openmed.deidentify` and `openmed.analyze_text`. This is the **first** stage. After intake, hand off to `deidentifying-clinical-text` then `extracting-clinical-entities`. ## What is supported today `redact_document` dispatches by file extension. Live handlers: | Input | Extensions | Path | | --- | --- | --- | | Images / scans | `.png .jpg .jpeg .tif .tiff .bmp .gif .webp` | OCR (`ocr()` / image handler) | | Tables | `.csv .tsv` | column-aware tabular redaction | | C-CDA | `.xml` (detected as CDA) | stdlib CDA adapter | …
Read the whole file at its exact version.
How to install
mdr add maziyarpanahi/openmed/ingesting-clinical-documents@sha256:f3db6a26a6823970The line at the top of this page pins the label v1.0, 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_ycjhsh5ngjbc7oxq)
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Versions
The registry has recorded 1 version of this file, committed on Jul 20, 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 (8031 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
maziyarpanahi/openmed · 5,784 stars · license Apache-2.0 · pushed 2026-11-07 · branch master
API
GET https://markdownregistry.com/api/v1/artifacts/art_ycjhsh5ngjbc7oxq GET https://markdownregistry.com/api/v1/resolve?ref=maziyarpanahi/openmed/ingesting-clinical-documents GET https://markdownregistry.com/api/v1/blob/f3db6a26a6823970c763563c68ae3628d5adf8dfbd3fac304781b26a16e1f776
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.