README.md

metadata

dataset_info:
  features:
    - name: protein_name
      dtype: string
    - name: species
      dtype: string
    - name: sequence
      dtype: string
    - name: annotation
      dtype: string
    - name: messages
      list:
        - name: content
          dtype: string
        - name: role
          dtype: string
  splits:
    - name: train
      num_bytes: 63705781
      num_examples: 21332
    - name: test
      num_bytes: 11945580
      num_examples: 4000
  download_size: 45260837
  dataset_size: 75651361
configs:
  - config_name: default
    data_files:
      - split: train
        path: data/train-*
      - split: test
        path: data/test-*

Dataset Transformation Summary

Original Dataset: monsoon-nlp/primate-proteins
Transformed Dataset: pkanithi/primate-proteins

Changes Made

Added messages Column

• Added a new messages column in ChatML format
• Each example now contains a conversation structure with system, user, and assistant messages

Data Filtering

• Filtered out proteins with no annotation (annotation != None)
• Ensures all examples have valid ground truth annotations

Dataset Splitting

• Split the original 'train' split into train and test sets
• Test set: 4,000 examples
• Train set: Remaining examples
• Used seed=42 for reproducible splits

Chat Format Structure

Each example now has a messages array with:

1. System message: Instructions for protein annotation assistance
2. User message: Protein entry with name, species, and sequence
3. Assistant message: Original annotation from the dataset

The user message format:

Here is the protein entry:
- protein_name: [protein_name]
- species: [species]  
- sequence: [sequence]

Result

The dataset is now in ChatML format suitable for supervised fine-tuning with train/test splits, while preserving all original protein annotation content.