MICAIA® Changelog

Version 1.2.0

  • [I/O] new format: Zeiss CZI (brightfield and fluorescence, multiple scenes support)
  • [I/O] new format: Hamamatsu NDPIS (mIF)
  • [I/O] fix issue with opening certain Roche scans in *.bif format
  • 16 bit rendering and 16 bit histogram (optionally force 8 bit to save memory)
  • [studio] FL Colocalization App has new mode: segment nuclei and create cell outline by growing nucleus. Select for each marker whether they should be evaluated only in  the nucleus, only in the cytoplasm or in both zones.
  • [studio] IHC Cell Detection App: redone from scratch. More options and better quality results. Support cytoplasmic/membrane markers such as T-cell markers CD3/CD4/CD8.
  • [studio] FISH HER2/neu App: show additional diagrams / plots
  • [studio] Mask-by-Color App: now also works with fluorescent slides
  • [studio] Cell-Cell-Connection App: collect more statistics, incl. #bystanders by cell type and average distance by cell type
  • new feature: Tiling App and Annotation-Image-Export App can now also create masks that can be used to train segmentation AI models
  • new feature: force for annotations globally: filled or outline-only
  • new feature: annotation classes can be tagged. Classes can be hidden or shown by tag.
  • new feature: list annotations in column in "Slides" table view
  • new feature: double-click viewer with hand-tool to zoom-in. Double-click again to zoom-out again.
  • new feature: combine live stain unmixing with masking
  • new feature: show annotation counts in slide pane (in table-view)
  • new feature: export annotations from multiple selected slides into csv (via slide pane)
  • highlight in "Slides" pane, which slides are currently opened
  • add create/load preset buttons more prominently to classes sidebar
  • make annotation actions (grow, scale, select, add margins...) accessible from popover in main toolbar
  • new feature: add toolbar buttons to open previous / next slide in workspace
  • new feature: fly to previous / next annotation in class
  • bugfix: vertical coordinate offset in Aperio XML annotation export for slides with non-square pixels (e.g. 3DHistech P1000)
  • various bugfixes

Version 1.1.0

  • MICAIA studio release
  • [studio] new Apps: Mask by Color, Cell-based IHC Scoring, FL Cell Counting, FL Colocalization, FL Spot Counting, FL FISH HER2/neu Scoring, Cell-Cell Connections
  • [studio] FL Colocalization Plots
  • new free App: Foreground Detection
  • Tile Export App: support only exporting tiles that contain foreground (tissue)
  • improved pen tool: user can now release the mouse while drawing an annotation in order to to rest their finger or to navigate
  • viewer supports stain-unmixing
  • new "annotation class changer" tool. This brush changes all existing annotations it touches to the currently selected class.
  • support Olympus VSI format (brightfield only)
  • App configurations can now be saved as a prese
  • support executing analysis batches from *.micbat file
  • A set of classes including their names and styles can now be saved as a preset
  • markup opacity can now be changed centrally for all classes at once
  • the image layer can now be hidden in order to only show the markup
  • added new more flexible window docking system
  • when multiple slides are viewed side-by-side, their title is now visible in
    the tab title
  • support reading annotations from *.mrxs slides
  • when a Aperio XML markup file is located next to a slide and has the same base name, it will automatically be loaded
  • redesigned the annotation class buttons so that it can be more easily selected
  • bugfix: undo/redo not possible for changing an annotation's class
  • bugfix: the current class was sometimes reset to the first class
  • bugfix: slide was marked as having pending changes even when annotation layers were shown/hidden
  • bugfix: auto-save file was used even when user answered "restore?" prompt with "no"
  • various bugfixes and optimizations
     

Version 1.0.0

  • initial release of MICAIA® lite