Stereo Investigator Version History

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Stereo Investigator® Version 2022.2.1 (Latest Version)

Released April 2023

New Features and Enhancements

  • Added support for Leica K5 and K3C cameras’

  • Decimal points can now be entered during setup in the Slide Scanning workflow
  • Smart optimization feature is off by default

Stereo Investigator® Version 2022.2.1

Released July 2022

New imaging and data handling engines: MBF Bioscience software includes new image acquisition and image/data display technologies that maximize efficiency and speed throughout Stereo Investigator. Compile, save, load, display, and process your files much faster than before. These new imaging and data-handling engines employ intelligent image loading, concurrent usage of CPU cores, and multiple levels of data caching for efficient use of RAM and GPU resources. The speed and capabilities of Stereo Investigator software are now limited only by the resources of the computer on which it’s installed. 


You will see major improvements in overall function and performance; highlights include:

  • Acquire much, much larger images than was previously possible—in the multiple terabyte range

  • Load very large image and data files noticeably faster than before—no lagging, no crashing

  • Handle millions of data points simultaneously—faster software response than ever before

  • Combine multiple data files, each containing massive numbers of markers, traced structures and/or stereology probe runs

  • Display image adjustments immediately in both the 2D and 3D windows—without clicking any buttons


Improved slide scanning workflow: The new imaging engine dramatically increases the size of images that can be acquired. The speed of image acquisition and assembly in the slide scanning workflow has also been improved. Benefits include:

  • Create larger slide-scans—at higher magnification and/or from larger specimens than possible in previous releases

  • Preview images before finalizing your large-image compilation settings

  • Include optional XY stitching for better image-tile alignment and cleaner compiled images

  • Mitigate uneven illumination artifacts in fluorescence imaging using (optional) intelligent, image-data based flatfield correction

  • View the amount of disk space needed for the slide scan before starting the image acquisition

  • Compile large images faster

  • Compile partial scans in the event an acquisition fails partway through


Software authorization and options

  • Easier software authorization—Stereo Investigator has a new, easier to use, licensing mechanism. License can be updated for renewal, or trial without having to connect to MBF staff.

  • Floating licenses are now available—share one Stereo Investigator license on more than one computer


More options for opening images

  • Indicate how you want Stereo Investigator software to handle and display your images

  • Open all images in container files such as Leica .lif and Zeiss .czi formats

  • Choose to display in a grid, stack images, or display on top of each other without stacking

  • Drag and drop to open files—the new Image Opener window makes it easier and more powerful


Probe-workflow improvements

  • Optional second counting frame in the Optical Fractionator Workflow makes it easier to count two sets of objects in a single pass—ideal for structures that are very different in size and/or population density

  • Significantly easier method to launch the Optical Fractionator Workflow using images that were acquired on other (non-MBF Bioscience) microscope systems, such as a confocal microscope


3D visualization window: The highly versatile 3D visualization environment includes a full suite of image optimization tools with state-of-the-art features that support your analysis and publication needs. Improvements include:

  • A new subvolume function in the 3D window enables you to easily and systematically focus on portions of images/image stacks

  • Color channel selection in the 3D window via a new Channel panel enables you to select one or more color channels to view and hide

  • New tool that clips tracings to a partial projection view


Other improvements

  • New Freehand Selection tools provide more options for selecting markers or contours

  • Updates to the Image Montage tool that support automatic z-alignment and the option to consider image names in the 2D image-alignment process

  • The default image-save format is now .xml

  • Research Resource Identifier (RRID) is now recorded in every xml data file

  • Simpler automatic exposure (in the camera settings) to achieve the target luminance for each image acquisition

  • Updated the Illumination Correction tool

  • Updated tool tips that display when hovering on buttons and tools throughout the software

  • New hardware support for the following:

    • Zeiss Apotome 3

    • Luminera CMOS camera

    • Basler cameras

  • New support for the following image formats

    • Big tiff

    • Hdf5

  • Custom Z offset is now available for use in Device command sequences

Stereo Investigator® Version 2021.1.1 (Latest Version)

Released May 2021

New Features and Enhancements:

  • Support for new Lumenera Lt-3200 CMOS color camera
  • Support for Zeiss MTB version
  • Support for Nikon RDK

Stereo Investigator® Version 2020.2.1

Released September 2020

New Features and Enhancements:

  • Basler cameras are now supported
  • Checkbox to “Use local help system” added to Preferences
  • PC serial number is now available in the About menu

Stereo Investigator® Version 2020.1.1

Released February 2020

New Features and Enhancements

  • New contour list tool that:
    • Enables importing of csv or txt file of regions or contour names
    • Enables ability to search for names in the list of contours
  • Added controls in the export tracing dialog for exporting images at a specific resolution
  • Added a function to replace current image stack in the Optical Fractionator Workflow
  • Added an edit option to “select everything of this contour type”
  • Added a new, fast cursor option in preferences. Selecting this option addresses potential issues with cursor delay
  • Shift click will now erase markers in the PSI
  • New montage option, ‘Order and align using image name’

Stereo Investigator® Version 2019.1.3

Released June 2019

New Features and Enhancements

  • Cell detection workflow – step 3: added input text box to filtering slider under Parameters

Stereo Investigator® Version 2019.1.2

Released March 2019

New Features and Enhancements

  • Slide Scan workflow – step 1: fluorescent scan automatically selected when multichannel is enabled
  • Slide Scan workflow – step 8: “acquire sample image” unchecked by default
  • Slide Scan workflow – step 10: user no longer prompted to save background correction image (brightfield only)
  • File>Preferences: “Show lens in Quick Access toolbar” added

Stereo Investigator® Version 2019.1.1

Released January 2019

New Features and Enhancements

  • Slide scan workflow added to simplify slide scanning
    Completely redesigned Preferences panels with a handy search functionality
  • Export: New “Set neuron colors” button and button to launch neuron preferences (#159494231); scalebar color and placement controls; new EMF detail slider
  • Fractionator probes: Site details results added; details toggled in Preferences>Stereology Results
  • Physical Fractionator probe: Biolucida integration (#159853825)
  • Huron support: Huron jpeg files, definition for Huron file extension, support for Huron TIFF images
    3D contour editing: Added button to reset all selected contours/shells back to Line mode display
  • Slide scanning assembly operation: added notification about missing tiles or partial assembly; enabled assembly with missing tiles for partial acquisitions
  • Sections: Display warning message when user attempts to change sections while moving to the next section

Stereo Investigator® Version 2017.03

Released May 2017

New Features and Enhancements

  • Version update: New version notification window displayed when opening program.
  • File formats: Apotome CZI, ND2 supported.
  • Area Fraction Fractionator probe: Automatically place markers inside contour at each site, choose additional marker to mark with middle mouse button; faster handling of large probe runs.
  • Cavalieri probe: Increased speed.
  • Counting frame: Center the counting frame preview in the live image area while defining the counting frame.
  • Dongle: Alert is displayed when dongle is not plugged in.
  • Workspace>Acquisition tool panels: “Show all” remembers the position of docking windows if you move them.
  • Slide Loader: Acquire a single plane thanks to decreased restrictions in the workflow.
  • Error message: CZI Apotome message modified to state “Tiff versions of these images are supported.”