Bitplane – Imaris
Available for Windows and Mac, Bitplane’s product line offers the most powerful and versatile 3D and 4D imaging analysis software solution on the market for researchers in life sciences, medicine and related fields. Eight unique modules can be individually combined to perfectly match the researchers imaging needs. From visualization and analysis to publication, Bitplane’s Imaris products provide the most user friendly, accurate and integrated solution when only excellence will do.
To download a trial version: goto https://imaris.oxinst.com/downloads
Imaris
Imaris is Biplane’s core software module that delivers all the necessary functionality for data visualization, analysis, segmentation and interpretation of 3D and 4D microscopy datasets. Combining speed, precision and ease-of-use, Imaris provides a complete set of features for working with three- and four-dimensional multi-channel images of any size, from a few megabytes to multiple gigabytes in size. Conveniently load, process and visualize images acquired from almost any confocal and wide field microscope to gain new and groundbreaking insight from your image data.
Additional modules may be integrated with the core Imaris to enable specific user functionality.
Modules for Imaris
Imaris MeasurementPro
Imaris MeasurementPro enables researchers to extract critical statistical parameters from their microscopy images thus allowing for the quantification of scientific findings. Imaris MeasurementPro adds shape, size, and intensity based measurement capabilities to the volume rendering, surface rendering and object detection features of Imaris. It allows researchers to interactively classify, group, and filter segmented objects based on any of the calculated statistics. MeasurementPro enables 3D distance and angle measurements in your dataset.
- Obtain, view and export statistics
- Obtain precise measurements of intensity values
- Define object-based coordination system to compensate for translational and rotational object movement during observation
- Measure distances between points within an object
ImarisTrack – Tracker Module
ImarisTrack is the most powerful commercially available tracking software including motion & shape analysis that rises to the challenge of monitoring temporal changes in biological systems (2D and 3D images over time). ImarisTrack gives a choice of using one of the sophisticated tracking algorithms or manual tracking methods including track editing tool for both. ImarisTrack not only tracks motion and calculates position, speed or acceleration in the time-lapse datasets but also allows detection of temporal changes in intensity, shape (length, volume) of all detected objects including Cells, Spots and Surfaces.
- Automatically track objects in 3D + time
- Choose from a variety of tracking algorithms
- Handle thousands of objects and time points
- Manually edit, create or revise tracks
- Generate object and track statistics based on changes
ImarisCell
ImarisCell is designed for smart detection of cells based on cytoplasm or plasma membrane labelling. Cytoplasm, nucleus, nucleoli and various populations of vesicles can be detected and analyzed as a complete cell object. ImarisCell enables researchers to map organelles and other cellular components within individual cells and get measurements, such as number of vesicles, nucleus or cytoplasm volume or intensity etc. per cell basis. ImarisCell also allows researchers to examine the relationships between those components and between cells.
- Utilize biologically meaningful image analysis units
- Detect cells based on cytoplasm or plasma membrane staining (NEW cell detection algorithm available for membrane labelling only)
- Detect and classify vesicular objects of various populations
- Examine relationships between cells and cellular components
ImarisColoc – Colocalization module
ImarisColoc has been designed to give tools to quantify and document co-distribution of multiple stained biological components in 3D or 4D datasets. ImarisColoc provides an array of statistical parameters that include the number of co-localized voxels, the % of dataset, ROI or channel that is co-localized. More importantly, ImarisColoc offers a choice of well-established co-localization coefficients: Pearson’s and Mander’s.
- Multiple colocalization selection methods
- Obtain statistics in real time
- Present data as new 3D or 4D color channel
- Expand or narrow the computed histogram region
- Co-localization of entire time series analyzed in fewer steps
ImarisVantage
Welcome to a new era of data interpretation, plotting and presentation. This module enables you to compare and contrast experimental groups by visualizing your image data (segmented and original) in five dimensions as uni- or multi-variate scatterplots. Along with the use of box + whisker (5-number summary) plots Vantage will help you interpret intrinsically complex and dynamic phenomena. ImarisVantage enables researchers to dissect their multi-dimensional, multi-object images by creating a series of fully customizable plots for better understanding of hidden relationships and associations between calculated measurements, objects or groups of objects
- Create fast, explorative and interactive multi-dimensional plots with real objects
- Define different variable for each of the 5 dimensions (x, y, z, colour, size)
- Create side by side ready to publish univariate plots to compare groups
- Export figures and annotations into your presentations
- Get preview of the results of: Wilcoxon, T-test, F-test and Kolmogorov-Smirnov
Imaris FilamentTracer
FilamentTracer is the most advanced software product for the automated detection of neurons (dendritic trees, axons and spines), microtubules, and other filament-like structures in 2D, 3D and 4D. FilamentTracer provides a huge selection of Neuroscience specific statistical values: Dendrite Volume, Dendrite Length, Number of Dendrite Segments, Number of Dendrite Branches, Dendrite Area, Spine Volume, Spine Length, Number of Spines, Scholl Analysis, and many more.
- Use versatile filament tracing methods
- Obtain branch length and diameter statistics
- Manually draw segments with automated centering
- Utilize multiple branch selection methods
- Visualize filaments along with non-filamentous structures
Imaris XT
ImarisXT is a multi-functional two-way interface from Imaris to classic programming languages like Matlab, Python or Java enabling users rapid development and integration of custom algorithms that are specific and tailored to scientific applications where generic image processing would fail. Imaris XT enables free access to pre-existing library of XTensions available on Imaris Open which let you perform, i.e. : relative distance analysis between biological structures, quantifying the object-based colocalization of multiple vesicle markers, visualization and quantification of overlap region and contact area between two 3D structures.
- Develop custom algorithms for image processing and segmentation
- Answer challenging questions with targeted tools
- Integrate new modules with a customizable user interface
- Exchange data with Matlab, Java and Python
- Free access to pre-existing library of XTensions
ImarisBatch
ImarisBatch is an Imaris subsystem for the processing of 2D, 3D, and 4D image series in batch. This subsystem saves valuable time when running repetitive jobs because processing can be queued and completed without interaction from the user. Since the introduction of Imaris 8.0 batch operations can be triggered directly from the Arena view. The user can execute a pre-defined image analysis protocol on all images of one group or all images from multiple groups. The results of batch analysis can be directly displayed and explored in Imaris Surpass or Imaris Vantage.
- Save valuable time by batch processing
- Reproduce exact analytical procedures
- Decouple time consuming procedures from interactive sessions
- Batch process the full experiment and get the results which preserve the experiment structure
- Utilize large servers for parallel processing
Imaris Lineage
ImarisLineage is the most powerful commercially available tracking software including motion & shape analysis of all moving objects, including dividing cells. ImarisLineage gives a choice of using one of the sophisticated tracking algorithms or manual tracking methods including track editing tools for both. ImarisLineage not only tracks motion and calculates position, speed or acceleration in the time-lapse datasets but also allows detection of temporal changes in intensity, shape (length, volume) of all detected objects including Filaments, Cells, Spots and Surfaces.
ImarisLineage enables creation of an interactive and editable lineage tree where the cell fate can be traced from one progenitor cell to the final generation. Every selected group of cells (e.g. cells coming from the same progenitor) can be labelled with a different name and color. Additionally, a range of statistic measures relevant for cell studies are included such as: Cell Cycle Duration, Generation, Time Since First Division, Time Since Previous Division.
- Automatically track all objects including dividing cells in 2D/3D + time
- Create interactive lineage tree (for Cells, Surfaces and Spots)
- Use streamlined track/lineage editor
- Label lineage tree branches with selected colors and names
- Retrieve statistical measurements per labelled group of cells
Voloom
Voloom® is an intuitive and automated software solution for 3D alignment and reconstruction of whole slide scanner images of any size. Voloom enables the examination of tissue slices as a 3D volume thus revolutionizing the way users of whole slide imaging devices can see and interact with the entire 3D sample. Imaris reads Voloom output and can determine a number of key parameters (i.e. volume, shape, surface structure and many more quantitative measures). Voloom is created by microDimensions.
- Automated alignment of serial sections (Voloom)
- Interactive 3D visualization (Voloom and Imaris)
- Object detection and analysis (Imaris)
- Data plotting and hypothesis testing (Imaris)
See video Tutorials: Click here