How to...
In this How to section, you will learn how to integrate a XTension downloaded from the Imaris Open page within Imaris
This tutorial will introduce the Spots Close To Surface XTension. Out of all previously created Spots objects, this XTension finds the subset of Spots that are closer to the Surface objects than the user specified threshold.
This tutorial will show you how to interpret box plot information and how they can be used to help you discover more about your data.
This tutorial is about how to start off with ImarisVantage. Its interactive visualization methods help you to enhance the understanding of complex statistical data by creating plots using actual segmented objects.
This tutorial is about the bounding box statistical variable. A bounding box is a rectangular cuboid in 3D, or a rectangle in 2D, containing a single detected object.
This tutorial will introduce the Split Spots XTension. This XTension splits one Spots object in multiple Spots objects if the minimal distance between their spot elements is greater than the user-defined threshold.
Learn how to enable the link between ImageJ/Fiji and Imaris as well as Matlab and Imaris. This link allows for the use of ImageJ/Fiji publicly available plugins as well as Imaris XTensions
Once a creation Wizard has run its course and desired objects are created, all creation parameters used in the process are listed under the Creation tab. Here you can find two buttons - Rebuild and Remember parameters. To find out more about the Rebuild button, please refer to “How to use the rebuild function” section. The other button - Remember parameters, allows you to save the creation parameters...
ImarisCell features automated methods to identify, segment, trace, classify and analyze Cell, Nucleus and Vesicle objects in 2D and 3D time-resolved images. The Cell creation wizard has been specifically designed and structured to impose specific biological constraints relevant for tracking analysis. The first part of the Cell creation wizard detects, segments and classifies all pertinent cells and sub-cellular components...
This short tutorial will familiarize you with more options for modifying an ImarisVantage plot. Following the plot’s creation, objects’ size and orientation are automatically determined to provide the optimal plot display. This is determined by the number of selected plot dimensions, the values of the chosen statistical variables and the number of objects being visualized...
ImarisVantage crates colorful high-dimensional plots in a way that makes the statistical data more meaningful. The plots are designed to enhance visual and intuitive understanding of the data by combining the numerical and graphical approaches. ImarisVantage lets you generate a hypothesis about the meaning of your data that can be easily tested with the appropriate Vantage plots...
ImarisVantage is a statistical data visualization module providing a way to display relatively abstract numerical values reflecting relationships between objects. It creates informative, multi-dimensional, dynamic and fully interactive plots that facilitate data understanding by presenting it in insightful visual form...
Continuous developments in microscopy have made it possible to produce large numbers of high-resolution cell images. The volume of image data produced makes it necessary for researchers to have a high degree of automated image analysis...
In large data sets where each object has multiple statistical attributes, identifying groups of objects that are similar to each other but different from other objects within the image can be time consuming and bias...
Manual tracking allows you to track objects within a time-resolved data set by manually specifying the object location for each time point. The mode of tracking is performed by clicking on the structure in the image which serves as a visual reference (template)...
Under the ‘Setting’ tab, several visualization options are available to change the appearance of the Spots and Tracks. By default, the Spot objects are visualized as a sphere. Further, the Spots can be visualized either simply as the center point for complex data sets or else be hidden to show only the original data and track...
The Imaris 'Snapshot' feature captures a 2D image of your 2D, 3D or 4D image data as it currently appears in the viewing area. It creates a new file containing your image and all scale information, measurements data, and ROI that are displayed...
Revealing the specific properties of the objects within your images is a
common goal for many Imaris users. However, finding the most
significant data by examining the entire set of statistical values can
be a difficult task...
Within the MeasurementPro module Imaris offers tools for making
quick, manual distance measurements directly on your 3D image.
By using Measurement Points you can easily obtain the distance between
two structures or
between arbitrary locations by interactively specifying those
positions simply using mouse clicks...
Observing the exterior shape of a rendered 3D model may not always
provide the best visualization of your sample. To achieve a more desired
view, it may be necessary to uncover hidden regions by re-slicing the
image data in a different orientation...
FilamentTracer data can be displayed in a myriad of different ways. This
flexibility allows you to best fit your tracings to the specific
visualization needs of your audience...
Statistical annotations give researchers the ability to view and
annotate segmented objects with any statistical value that has been
calculated for that object (i.e. Size, Shape, Intensity, Position,
Movement). The statistical annotations allow the researcher to
explicitly show the calculated value right next to the object of
interest. Statistical annotations are available for display in the
3D/4D image for Spots, Surfaces, Cells, Filaments, and Tracks...
Have you ever wanted to go back through a creation wizard and change a
few parameters? The Rebuild tab offers the possibility to re-enter the Creation
Wizard and use previous parameter settings and processing instructions
as initial values...
Did you know that you can view the time dependant changes in statistics for each object you have tracked? If you have an image in 2D or 3D that changes over time: Segment the object with the spots or surfaces component (soon the filament component too!) of Imaris; Choose to track the object as part of the creation wizard; Once segmentation and tracking is complete click on the statistics tab (the small red graph icon);
Click on the detailed statistics tab; Choose Specific Statistics;
Then choose a statistic of interest...
The settings applied during the image acquisitions are crucial to obtain
desired image information. Yet, the image characteristics may be less
than optimal and the preferred results are not achieved, because of
compromises you may have had to make during the image acquisition.