folding 0.0.3

ColabFold modified for AlphaFold2 and local installation

Folding

Folding is a streamlined version of ColabFold that focuses on running AlphaFold2 locally on Linux systems. It combines the power of ColabFold and LocalColabFold to provide an easy-to-use tool for protein structure prediction.

Features

• Supports AlphaFold2 for protein structure prediction
• Includes folding-search and folding-batch functionalities

Requirements

• Linux
• RTX 4070 or greater

Installation

1. Clone this repository or download it to your local machine.
2. Navigate to the folding directory:

   cd /path/to/folding
   

3. Run the installation script:

   bash install.sh
   

4. After installation, add the folding conda environment to your PATH:

   export PATH="/path/to/folding/folding-conda/bin:$PATH"
   

Usage

folding-search

To use folding-search:

folding-search [OPTIONS] QUERY_FILE RESULTS_DIR

For more details on available options, run:

folding-search --help

folding-batch

To use folding-batch:

folding-batch [OPTIONS] INPUT_DIR OUTPUT_DIR

For more details on available options, run:

folding-batch --help

Support

For issues and feature requests, please open an issue on the GitHub repository.

License

This project is licensed under the MIT License. See the LICENSE file for details.

Acknowledgements

folding is based on the work of ColabFold and LocalColabFold. We thank the original authors and contributors of these projects for their valuable work in the field of protein structure prediction.