Try BioImage Suite Web, a modern and powerful software for neuroscience

[SNeuroble]

Project info

Title:
Try BioImage Suite Web, a modern and powerful software for neuroscience

Project lead:
Lead developers/PIs: Dustin Scheinost and Xenios Papademetris
Brainhack project leads: Stephanie Noble, Javid Dadashkarimi

Project collaborators:
Contributors
Xenophon Papademetris, Dustin Scheinost, Javid Dadashkarimi, Stephanie Noble, Zachariah Saltzman, Cheryl Lacadie, Haley Garbus, John Onofrey

Registered Brainhack Global 2020 Event:
Brainhack Global NYC

Project Description:
BioImage Suite Web (BISWeb) is a point-and-click app that runs in any modern web browser without any installation necessary, yet with performance rivaling that of a locally installed software. Furthermore, BISWeb is built with modern features that promote usability, reproducibility, and more transparent data sharing. Current applications include MR and calcium imaging analysis and visualization.

A couple technical notes: 1) this software can also be used as a desktop app via node, and 2) no servers are used to host user data—instead, all data manipulation takes place on the client computer. One can even navigate to an app module, disconnect from the internet, and begin using the tools.

User Documentation—handbook
User Documentation—videos
Developer Documentation

Data to use:
We encourage you to play around with the software using your own data. As mentioned above, all data remains 100% on the client computer—this software does not use any servers to transfer/hold your data at any point. However, a few images (e.g., MNI T1) are provided by the software for testing (see Help bar on a module page).

Link to project repository/sources:
Software
Code repository

Goals for Brainhack Global 2020:
In this Brainhack, we're welcoming everybody to play around with the web-based application and give any feedback! Specifically, we're looking for users to go through various steps outlined in the docs (especially for connectivity visualization, preprocessing, and live figures) and:

1. Give any feedback about what elements of the docs and user interface/experience could be improved (e.g., unclear, clunky, etc.)
2. Tell us about anything you think would be useful to see in this software

Note: The main focus of this project is on the web-based app; however, if you're fairly comfortable with the command line, we'd also welcome you to download the desktop app with node and try it out!

Skills:
This project is open to any participant across any level of familiarity with programming and neuroscience. In fact, we value insights from participants who are fairly new to programming and/or neuroscience because we are hoping to provide an application that is as easy to use as possible for users with any background. Thus we're only looking for a willingness to try new/different things and attention to detail.

Tools/Software/Methods to Use:
No prerequisites (this software is ready-to-go in web)

Communication channels:
Mattermost channel
Zoom channel

Project labels

• I added all of the labels I want an associate to my project

Project Submission

Submission checklist

Once the issue is submitted, please check items in this list as you add under ‘Additional project info’

• Link to your project: could be a code repository, a shared document, etc.
• Goals for Brainhack Global 2020: describe what you want to achieve during this brainhack.
• Flesh out at least 2 “good first issues”: those are tasks that do not require any prior knowledge about your project, could be defined as issues in a GitHub repository, or in a shared document.
• Skills: list skills that would be particularly suitable for your project. We ask you to include at least one non-coding skill. Use the issue labels for this purpose.
• Chat channel: A link to a chat channel that will be used during the Brainhack Global 2020 event. This can be an existing channel or a new one. We recommend using the Brainhack space on Mattermost.

Optionally, you can also include information about:

• Number of participants required.
• Twitter-sized summary of your project pitch.
• Provide an image of your project for the Brainhack Global 2020 website.

We would like to think about how you will credit and onboard new members to your project. If you’d like to share your thoughts with future project participants, you can include information about:

• Specify how you will acknowledge contributions (e.g. listing members on a contributing page).
• Provide links to onboarding documents if you have some:

[complexbrains]

Dear @SNeuroble Thank you very much for submitting such an amazing project! All looks good! If you can just provide an image of your project soon somewhere above the issue then it will be ready and @SamGuay will publish your project among other projects in our webpage 🤗

Hope you enjoy your participation in the Brainhack Global 2020 🎉

[SNeuroble]

Thanks Isil—done and should now be ready to go!