A list of suggested tools, with ratings and comments from previous users;
Documentation from the developers, including notes on the different versions of the tools (developed after the initial release, but likely not documented in any publication);
Pointers to where the tool can be downloaded, and location of example data ;
Which paper or DOI to cite if using the tool;
Support: who to contact if bugs are discovered or questions are not answered in the online material.
The hub serves as an platform for users to sift through the often overwhelming amount of information regarding bioimage analysis-specific problems. It should be the first stop for every bioimage analyst unsure of where to begin, with the added insurance that BISE entries have already been curated and recommended by interdisciplinary experts from research groups all around the world.
Software platforms referenced: KNIME, ICY, ImageJ, Matlab, CellProfiler, ImagePro, Volocity, ITK, FIJI, Vaa3D
content and knowledge aggregation model
capitalise on existing active scientific communities but through the lens of bioimaging vocabulary (filter content) → a gateway
important not to just distinguish software platforms but also licensing issues
BISE can suggest cross-platform tools and methods based on user requirements and knowledge (‘related searches’, ‘users also searched for’)
Is there a way to show the count of each BISE entry? i.e. xxx Matlab submissions, xxx ImageJ submissions…
This would be a good way for users to track where the most active and engaged development is happening
metrics and statistics breakdown
Social media sharing (Twitter …)
Instead of searching each of the many software-specific repositories (discussion forums), should be possible to take query to BISE. BISE may then end up pointing the user to GitHub or MathWorks File Exchange, but a search of BISE will likely have returned a list of solutions and perhaps a comparison of the different existing implementations (and their history).
Example use case: from perspective of a biologist: Need to track fluorescently labeled ends of growing and shrinking microtubules, acquired with confocal microscope as a time-series of z-stacks. By entering the underlined keywords in BISE a list of suggested tools are returned, with ratings and comments from previous users, documentation from the developers, notes on the different versions of the tools (developed after the initial release, but likely not documented in any publication), pointers to where the tool can be downloaded, where example data can be found to learn to use the tool, which paper or DOI to cite if using the tool, who to contact if discovering bugs or having questions not answered in the online material