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Kanagawa_DNA_Storage

An encoding/decoding toolkit for DNA digital data storage. This project is developed for EE411 Information Theory and Coding at SUSTech.

Introduction

Kanagawa_DNA_Storage is a toolkit designed to encode digital data into DNA sequences and decode DNA sequences back into digital data. The project leverages Reed-Solomon error correction and robust soliton distribution for efficient and reliable data storage and retrieval.

Requirements

  • C++17 compatible compiler
    • CMake 3.10 or higher
    • OpenCV
    • OpenSSL
  • Python 2.7
    • NumPy
    • tqdm
    • reedsolo

Installation

First, clone the repository:

git clone [email protected]:SUSTech-ISACG-Association/Kanagawa_DNA_Storage.git

C++ Components

# Create a build directory
mkdir build
cd build
# Make sure you have OpenCV and OpenSSL installed
cmake ..
make

Python Components

Install the required Python packages:

pip install -r requirements.txt

Usage

Decoding

The decoding step is divided into two parts: decoding the DNA sequence into an intermediate binary file (SeedData.txt) and decoding the binary file into the original data.

  1. Compile the decoder

  2. Run the decoder with the DNA sequence as input

    ./decoder

  3. Run the Python script to decode the SeedData.txt file into the original data

    python finalize.py

Note that by default, the DNA sequence is read from the file 50-SF.txt, the intermediate binary file is written to SeedData.txt, and the decoded data is written to Kanagawa.jpg. You can change these settings in the decoder.cpp and finalize.py files.