deidentify-a-dataset SKILL.md skillA
deidentify-a-dataset 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/deidentify-a-dataset@git:20260727.9d7b5a2Pins git:20260727.9d7b5a2 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- maziyarpanahi/openmed
- Path
skills/deidentify-a-dataset/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260727.9d7b5a2, committed Jul 27, 2026
- Size
- 3,037 bytes
- Repository stars
- 5,784
- License
- Apache-2.0
De-identify selected free-text columns in a local CSV, JSONL, or Parquet dataset with OpenMed and produce a separate redacted dataset plus a PHI-free aggregate summary. Use when an agent must prepare a clinical dataset for analysis or sharing without overwriting the source or exposing cell values in logs.
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
# De-identify a dataset
Keep the source local, name the free-text columns explicitly, and write to a
different destination. Never infer columns or print source and redacted cell
values.
## Procedure
1. Confirm that the input is CSV, JSONL/NDJSON, or Parquet.
2. Confirm which columns contain free text. Do not scan or log values to guess.
3. Choose a policy and language. Prefer `strict_no_leak` when recall is the
governing safety requirement.
4. Write to a new path; never overwrite the input.
5. Inspect only `result.summary`, which contains aggregate counts and rates.
6. Validate recall and residual leakage on representative synthetic or
approved evaluation fixtures before releasing the output.
## Runnable synthetic example
Install the model runtime first with `python -m pip install "openmed[hf]"`.
```python
import csv
from pathlib import Path
from openmed import redact_dataset
source = Path("synthetic-notes.csv")
destination = Path("synthetic-notes.redacted.csv")
with source.open("w", newline="", encoding="utf-8") as handle:
writer = csv.DictWriter(handle, fieldnames=["record_id", "note"])
writer.writeheader()
writer.writerows(
[
{
…Read the whole file at its exact version.
How to install
mdr add maziyarpanahi/openmed/deidentify-a-dataset@sha256:16425fb1377b7151The line at the top of this page pins the label git:20260727.9d7b5a2, 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_ftx7xewj7duhfwvd)
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Versions
The registry has recorded 1 version of this file, committed on Jul 27, 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 (3037 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_ftx7xewj7duhfwvd GET https://markdownregistry.com/api/v1/resolve?ref=maziyarpanahi/openmed/deidentify-a-dataset GET https://markdownregistry.com/api/v1/blob/16425fb1377b7151c6c230b052ad7a5ce81a8b275350887bc96b48779f249ca3
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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.