Detected objects can be transformed, filtered, measured and related. Analysis workflows are batch-enabled by default, allowing easy processing of high-content datasets. MIA is developed in-house at the Wolfson Bioimaging Facility, in response to the needs of our users.

Features

• Workflows can be automated from initial image loading through processing, object detection, measurement extraction, visualisation, and data exporting.
• Near 200 modules integrated with key Fiji plugins such as BioFormats, TrackMate and Weka Trainable Segmentation.
• Workflows are, by default, compatible with batch processing multiple files within a single folder.
• Designed for compatibility with spatially-calibrated 5D images, yielding image and object measurements in both pixel and physical units.
• Compatible with many proprietary imaging formats such as Leica .lif and Zeiss .czi via Fiji’s BioFormats plugin.
• Functionality can be extended via integration with Fiji’s scripting interface or with Java classes that extend the core MIA framework

Advantages

• Easy to install and run as a Fiji plugin. This also provides MIA access to all other plugins currently available to Fiji.
• Open source and free to download, so can be installed on multiple computers.
• Developed within the Bioimaging Facility, so support can be provided by the creators. Similarly, functionality can be added as required for specific projects.

Citing

• Cross, S.J., Fisher, J.D.J.R. & Jepson, M.A., "ModularImageAnalysis (MIA): Assembly of modularised image and object analysis workflows in ImageJ", Journal of Microscopy (2023), doi: 110.1111/jmi.13227

Availability

• Open source and free to download from https://github.com/mianalysis/mia
• Can be installed without elevated user rights into existing copies of Fiji.

Additional information

• https://mianalysis.github.io
• https://github.com/mianalysis/mia