Requirement of test data for others to test.

[chrisoldnall]

🧪 Requirement: Test Data for External Validation

Summary

At present, the protEncode pipeline does not include any small-scale example dataset for testing and validation by other users.
This limits the ability for contributors and new users to run the package end-to-end and verify functionality without access to the full internal data.

Proposed Solution

• Create a minimal test dataset (e.g. 3–5 protein sequences, 2–3 variant files, and corresponding metadata).
• Store it under data/test/ or make it accessible via a small GitHub release or Zenodo link.
• Add clear documentation in the README.md describing how to run protEncode using this test data.

Goals

• ✅ Enable reproducibility and automated CI testing.
• 🚀 Allow new contributors to confirm environment setup and expected outputs quickly.
• 📊 Provide a consistent benchmark for future development and regression testing.

Suggested Contents for Test Data

File Type	Description
FASTA	A few short protein sequences (e.g. 3–5)
Mutation file	Example input in the expected format
Metadata table	Includes gene, UniProt ID, and mutation position
Example output	Mock embeddings or summary file for validation

Priority

Medium

Status

Open for discussion