README.md

🧪 DECIMER Image Transformer 🖼️

Deep Learning for Chemical Image Recognition using Efficient-Net V2 + Transformer

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📚 Table of Contents

• Abstract
• Method and Model Changes
• Installation
• Usage
• Hand-drawn Model
• Citation
• Acknowledgements
• Author
• Project Website
• Research Group

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🔬 Abstract

The DECIMER 2.2 project tackles the OCSR (Optical Chemical Structure Recognition) challenge using cutting-edge computational intelligence methods. Our goal? To provide an automated, open-source software solution for chemical image recognition.

We've supercharged DECIMER with Google's TPU (Tensor Processing Unit) to handle datasets of over 1 million images with lightning speed!

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🧠 Method and Model Changes

🖼️ Image Feature Extraction Now utilizing EfficientNet-V2 for superior image analysis

🔮 SMILES Prediction Employing a state-of-the-art transformer model

🚀 Training Enhancements

1. TFRecord Files: Lightning-fast data reading
2. Google Cloud Buckets: Efficient cloud storage solution
3. TensorFlow Data Pipeline: Optimized data loading
4. TPU Strategy: Harnessing the power of Google's TPUs

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💻 Installation

# Create a conda wonderland
conda create --name DECIMER python=3.10.0 -y
conda activate DECIMER

# Equip yourself with DECIMER
pip install decimer

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🎮 Usage

from DECIMER import predict_SMILES

# Unleash the power of DECIMER
image_path = "path/to/your/chemical/masterpiece.jpg"
SMILES = predict_SMILES(image_path)
print(f"🎉 Decoded SMILES: {SMILES}")

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✍️ DECIMER - Hand-drawn Model

🌟 New Feature Alert! 🌟

Our latest model brings the magic of AI to hand-drawn chemical structures!

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📜 Citation

If DECIMER helps your research, please cite:

1. Rajan K, et al. "DECIMER.ai - An open platform for automated optical chemical structure identification, segmentation and recognition in scientific publications." Nat. Commun. 14, 5045 (2023).
2. Rajan, K., et al. "DECIMER 1.0: deep learning for chemical image recognition using transformers." J Cheminform 13, 61 (2021).
3. Rajan, K., et al. "Advancements in hand-drawn chemical structure recognition through an enhanced DECIMER architecture," J Cheminform 16, 78 (2024).

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🙏 Acknowledgements

• A big thank you to Charles Tapley Hoyt for his invaluable contributions!
• Powered by Google's TPU Research Cloud (TRC)

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👨‍🔬 Author: Kohulan

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🌐 Project Website

Experience DECIMER in action at decimer.ai, brilliantly implemented by Otto Brinkhaus!

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🏫 Research Group

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📊 Project Analytics