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ReproNim: A Center for Reproducible Neuroimaging Computation

Welcome to ReproNim!

ReproNim's goal is to improve the reproducibility of neuroimaging science and extend the value of our national investment in neuroimaging research, while making the process easier and more efficient for investigators.

ReproNim delivers a reproducible analysis framework comprised of components that include:

  • data and software discovery
  • implementation of standardized description of data, results and workflows
  • development of execution options that facilitates operation in all computational environments
  • provide training and education to the community

All components of the framework are intended to foster continued use and development of the reproducible and generalizable framework in neuroimaging research.

Data flow diagram

Breaking News

  • Announcing the new ReproNim Webinar Series, ‘First Fridays’ at 2pm, Eastern Time
    • Join us on the first Friday of every month, from 2-3pm Eastern Time
    • Featured topics will include important efforts in reproducibility, from both ReproNim and others
    • Friday, June 5, 2020 at 2pm EDT
      • ReproNim investigator Yaroslav Halchenko presents "Version control your data and computation using containers, DataLad and ReproMan, and reproducible they be!"
      • Video Conference open to the public, Register in advance for videoconference connect details]. *Please note, this is a new meeting link. Even if you have registered in the past, you may need to re-register.
    • Friday, May 1, 2020 at 2pm EDT
      • Guest speaker Franco Pestilli (Associate Professor, University of Indiana), discusses "brainlife.io A free cloud platform for secure, reproducible neuroscience data management, analysis and visualization."
      • Video Presentation is now available
    • Friday, April 3, 2020 at 2pm EDT
      • ReproNim investigator David Keator introduces "Tools and Techniques for BIDS Semantic Annotation and Query Across Datasets with NIDM"
      • Both the Video Presentation, and Slides are now available
  • We're excited to announce the second year of our ReproNim/INCF Training Fellowship!
    • Congratulations and Welcome to our 2020-2021 Fellowship Awardees! and a big thank you as well to all who applied.
  • Introducing our ReproNim problem solving series How would ReproNim do that ?!
    • In this series, we will look at a number of real world analytic, computational, data capture, management and data sharing problems in neuroimaging research.
    • In our first installment Volume 1: How Would ReproNim Do a Local Container Analysis we consider how to run a container-based analysis on a neuroimaging data set, using a local computer. Given the ReproNim goal of performing this analysis in a reproducible way so that someone else could do the same thing, we discuss a ReproNim approach to this task.
  • New Publication: The ReproNim Perspective on Reproducible Neuroimaging

See our ReproNim Publications

News History

Use cases

ReproNim tools and services are intended to support a wide range of users with varied background, from applied users with minimal or extensive experience in image analysis, physics, and computer science to technology developers and software engineers.

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Discover

On-demand access (discovery) for widely distributed web-based data, publication and software resources, with highly refined search tools. There are two broad classes of product we envision:

  • Tools to help researchers Publish their data, making it discoverable
  • Tools to help researchers Discover published data.

These tools are designed to facilitate data sharing, use and discovery. ReproNim is developing an integrated application, NeuroBLAST, that will powerfully enable user-specified search and publish functions to data repositories, published studies, versioned software packages, study-related questions, and content.

Read more.

Describe

Reproducible description based on recording, reporting, and reusing experimenter procedures from start to finish. Machine-captured experimental metadata from scanner (data acquisition) to methods, analyses, and results.

  • Tools to help researchers record (describe) experimental procedures
  • Tools to help researchers define and semantically describe workflow.

ReproNim is developing BrainVerse to help researchers manage, track and share information in a comprehensive format.

Read more.

Do

Efficient management of data and scripts while capturing the history and details of changes and analyses execution in a fashion that facilitates inspection, comparison, modification, sharing, and re-execution. We provide

  • Support, maintenance, and promotion of platforms (e.g., NeuroDebian) and tools (e.g., Singularity and DataLad) for efficient and reproducible computation and data management
  • Tools and materials to establish reproducible computation across all stages of the neuroimaging research

ReproNim is developing ReproIn framework for turnkey collection of BIDS datasets straight from the scanner, and ReproMan to help researchers track and manage computation resources that they have available and to use them in a reproducible and scalable way.

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Teach

An increasing body of evidence point to some issues in reproducibility in biomedical or life sciences. The issue of lack of reproducibility has been now described in several scientific domains and for several years, raising concerns in the scientific community. ReproNim has developed a curriculum that will give researchers the information, tools and practices to perform repeatable and efficient research and a map of where to find the resources for deeper practical training.

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Tools

We have many tools designed to help the user work through a more reproducible version of their data analysis tasks. These toold support areas such as Data processing, Data ingestion, Standardization, Search, Data Management, Computation, Testing, etc.

Read more.

Community

ReproNim is only as successful as the neuroimaging community itself. We encourage active participation and engagement in our efforts. See our current community collaborator and service projects.

Join us! If you have a project that could benefit from a collaborative relationship with ReproNim let us know your interests and needs via email at info@repronim.org. Someone from ReproNim will be in touch to see how we can work together.

Community events

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Contact

Email us at info@repronim.org

Read our blog at https://repronim.wordpress.com/

Find us on Twitter at @ReproNim

Watch us on at YouTube

Catch up on our news in the ReproNim Newsletter

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