Solvent: A Framework for Protein Folding

• URL: http://arxiv.org/abs/2307.04603v5
• Date: Mon, 31 Jul 2023 05:29:16 GMT
• Title: Solvent: A Framework for Protein Folding
• Authors: Jaemyung Lee, Kyeongtak Han, Jaehoon Kim, Hasun Yu, Youhan Lee
• Abstract summary: After AlphaFold2, the protein folding task has entered a new phase, and many methods are proposed based on the component of AlphaFold2. The importance of a unified research framework in protein folding contains implementations and benchmarks to consistently and fairly compare various approaches. We present solvent, a protein folding framework that supports significant components of state-of-the-art models in the manner of an off-the-shelf interface.
• Score: 0.39373541926236766
• License: http://arxiv.org/licenses/nonexclusive-distrib/1.0/
• Abstract: Consistency and reliability are crucial for conducting AI research. Many famous research fields, such as object detection, have been compared and validated with solid benchmark frameworks. After AlphaFold2, the protein folding task has entered a new phase, and many methods are proposed based on the component of AlphaFold2. The importance of a unified research framework in protein folding contains implementations and benchmarks to consistently and fairly compare various approaches. To achieve this, we present Solvent, a protein folding framework that supports significant components of state-of-the-art models in the manner of an off-the-shelf interface Solvent contains different models implemented in a unified codebase and supports training and evaluation for defined models on the same dataset. We benchmark well-known algorithms and their components and provide experiments that give helpful insights into the protein structure modeling field. We hope that Solvent will increase the reliability and consistency of proposed models and give efficiency in both speed and costs, resulting in acceleration on protein folding modeling research. The code is available at https://github.com/kakaobrain/solvent, and the project will continue to be developed.

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