Example workflows

Introduction

Example workflows for MIA can be found in the mia-examples repository. These introduce various processes of MIA such as image loading, object segmentation, object measurements and relationships and visualisation. Each example contains the necessary files to get it running: the example workflow, any raw images required and any example outputs that are generated by the workflow.

Each module in these workflows includes a corresponding set of notes summarising the purpose of that module and its configuration. These notes can be viewed by enabling the "Notes" panel ("View > Show notes panel" from the MIA menu) and selecting a module from the list of modules in editing view .

While these workflows correspond to a specific analysis, the principles covered (i.e. image loading, processing, object detection and measurements) are applicable to most workflows.

Note: Any object outlines in the generated "overlay" images will typically only be visible when opened in ImageJ/Fiji.