dnastorage 0.9.5

dnastorage provides basic support for encoding and decoding files into and out of DNA with several convenient interfaces.

dnastorage

• Overview
• Documentation
• System Requirements
• Installation Guide
• License
• Issues

Overview

Core encoding, decoding, and file manipulation support for modeling DNA-based information storage systems.

Documentation

As documentation for the software becomes available, it will be placed under the docs folder.

System Requirements

Hardware Requirements

The dnastorage module requires only a standard computer with enough RAM and compute power to support the needed operations. However, encoding or decoding large files may perform poorly, necessitating a more capable system.

Software Requirements

OS Requirements

This package is supported for macOS and Linux. The package has been tested on the following systems:

• macOS: Catalina 10.15.3
• Linux: Ubuntu 18.04.3

Note that most OSes will support our software by using Docker.

Python Dependences

Our code has been tested on python versions 3.6 to 3.8. It has the following dependences:

nose
sphinx
editdistance
statistics
biopython
matplotlib
numpy

Installation Guide

If you already have python 3 installed on your system, the simplest thing to do is download or checkout the code from GitHub. Then, run the following commands:

git clone https://github.com/dna-storage/dnastorage
cd dnastorage

I recommend making a virtual environment first, but this is optional:

python -m venv venv
source venv/bin/activate

Then, use pip to install the requirements and packages:

pip install -r requirements.txt
pip install .

License

This software is released under the LGPLv3 license.

Acknowledgment

This work was supported by the National Science Foundation (Grants CNS-1650148, CNS-1901324, ECCS 2027655) and a North Carolina State University Research and Innovation Seed Funding Award (Grant 1402-2018-2509).