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Simplifying data curation for researchers funded by the NIH SPARC innitiative
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README.md

Contributors Stargazers Issues MIT License


Logo

Keep Calm and Curate!

Your one-stop tool for curating and submitting SPARC datasets
By SPARC investigators, for SPARC investigators

Explore our documentation »

Watch tutorial videos · Report Issue · Submit feedback

Table of Contents

About

Software for Organizing Data Automatically (SODA) is a desktop software intended to facilitate the data organization and submission process for SPARC investigators and thus promote the FAIR Data Principles. The idea for such a tool originated during the SPARC Hackathon in December 2018, where it won the Public's Choice Award, before receiving support from the National Institutes of Health (NIH) for further development. SODA is designed such that users can accomplish all the requirements to submit a SPARC dataset rapidly through a single interface. Moreover, requirements have been broken down into easy-to-perform steps and automation has been integrated to reduce users' effort to a bare minimum during each step, often to just a few clicks.

interface
A screenshot of the user interface of SODA.

Downloading SODA

SODA is distributed as an easy-to-install application. Use the links below to download the version suitable for your operating system:

  • Windows (developed and tested on Windows 10) - Click here
  • Mac (developed and tested on Mojave 10.14) - Click here
  • Linux (developed and tested on Ubuntu 18.04.2 LTS) - Click here

All our releases are accessible in the releases tab. Latest version: 1.0.0

Important: the Blackfynn agent must be installed to upload datasets to Blackfynn through SODA.

Please follow the instructions given in our documentation if you need help with installing/uninstalling SODA. The software may work on older operating system versions than those specified above but no testing has been done on those platforms.

Using SODA

Click on the image below and watch our video to quickly familiarize yourself with the user interface of SODA:

We also suggest watching our tutorial video to learn how to easily organize and submit your SPARC dataset with SODA in 8 steps:

Although we would highly encourage you to use SODA for the entire organization and submission process of your dataset, SODA is designed such that you are not bound to using the software for all of the steps: you can perform desired steps from SODA and others outside.

Issues and feedback

To report any issues with the software, suggest improvements, or request a new feature, please open a new issue via the Issues tab. Provide adequate information (operating system, steps leading to error, screenshots) so we can help you efficiently. Alternatively, you could also use our feedback form. The feedback form is also accessible directly in the user interface of SODA.

interface
A screenshot of our feedback form in the user interface of SODA.

Using the Source Code

If you want to modify SODA to better suit your needs or compile it for an operating system not mentioned above, please follow the instructions provided in the developer guidelines of our documentation.

License

SODA is distributed under the MIT License. See LICENSE for more information.

Acknowledgements

  • NIH SPARC Initiative
  • Blackfynn Team
  • SPARC Dataset Curation Team
  • Our beta testers, including:
    • Natalia Biscola (Icahn School of Medicine at Mount Sinai)
    • John Dawson (UC Davis)
    • Clara Huesing (Pennington Biomedical Research Center)
    • Scott John (UCLA)
    • Muriel Larauche (Vatche and Tamar Manoukian Division of Digestive Diseases, Department of Medicine, UCLA)
    • Madelyn Lorenz (Washington University in St. Louis)
    • Kun-Han Lu (Weldon School of Biomedical Engineering, Purdue University)
    • Alison Moss (Thomas Jefferson University)
    • Anna Rietsch (Cleveland Clinic, Cleveland OH)
    • Joseph Sassoon (Integrated Medical Systems Laboratory - New York Institute of Technology)
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