pathml

PathML

Scope and safety boundary

Use PathML for local computational pathology research. It is beta research software, not a validated medical device, diagnostic system, clinical decision support tool, or substitute for a pathologist. Do not use outputs to diagnose, grade, stage, or treat a patient.

Pathology files may contain faces, labels, accession numbers, patient identifiers, DICOM tags, filenames, or linked clinical data. Before processing:

1. Confirm authorization, consent/waiver, data-use terms, and institutional policy.
2. De-identify pixels and metadata; keep the re-identification key outside the analysis workspace.
3. Use pseudonymous patient_id, slide_id, and specimen_id values. Do not put direct identifiers in filenames, logs, .h5path labels, model cards, or reports.
4. Keep inputs, intermediates, and outputs on approved local encrypted storage.
5. Split by patient (then slide) before tiling or fitting any preprocessing step.