Imaris Software

Imaris is Bitplane’s core scientific 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 data acquired from almost any microscope.

Imaris Stitcher

Imaris Stitcher is the newest member of the Imaris family and is a stand-alone application made for precise alignment and fusing of multiple microscopy image tiles into one 2D, 3D or 4D volume.

Alignment and stitching of 2D, 3D or 4D overlapping image blocks
Alignment and stitching in XYZ
Possible alignment and stitching of multiple tiles with many channels*
Aligns and saves images up to Terabytes in size**
Alignment based on the image content in the overlapping regions
Corrects for camera vs microscope stage rotation. This systematic error of the acquisition can be estimated from just a few pairs of overlapping images which contain content and then used to reposition all images even if the signal is insufficient.

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Imaris Viewer

Imaris Viewer is a free 3D/4D microscopy image viewer for viewing raw images as well as those analysed within Imaris.

Browse files as thumbnails and open 3D images
Visualize datasets previously analyzed in Imaris
Interact with 3D images using intuitive mouse controls
Inspect your images with clipping planes and 2D slicers
Easily generate high-resolution snapshots
Adjust and save brightness and contrast

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Imaris File Converter

ImarisFileConverter's redesigned GUI and batch conversion efficiently convert multiple large datasets to save you time.

Conversion is multithreaded (number of cores selected by the user).
Files dropped to conversion queue and processed with one click.
Additional files can be added during conversion.
Both Read progress and Write progress displayed.
Memory allocation increased to handle big data.
Each conversion runs as a separate process.

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XTensions

Imaris Open fosters collaborations between microscopists, life scientists, and computer scientists. Imaris Open offers two distinct but linked spaces: the Discussion Forum and the File Exchange. There are four main activities you can engage with while using Imaris Open, 1) download a existing XTension,
2) request a new XTension,
3) submit a new XTension,
4) discuss any topic related to Imaris, image visualization, analysis and interpretation.

Imaris Open and all its content are free to use.

1. Neuroscience XTension Pack 1 “Morphology and intensity analysis”

Classifying dendritic spine types via 3D morphological statistics
Measuring the intensity of dendritic and spine segments over time along the Filament object and within the predefined points of interest, ie: dendrite branch, spine attachment point.
Measurement of dendrite spread –“spanned area”
Visualization and quantification of overlap region between two 3D rendered structures, i.e. axons myelinisation
Automatic bouton (varicosity) detector
Quantification of neuron terminal endings

Get XTension Bundle 2

XTensions included:

Classify spines
Duplicate Spots to all time points
Filament analysis
Surface-Surface coloc
Surface Contact area
Convex hull

2. Neuroscience XTension Pack 2 – pre/post synaptic “Relative object distance analysis”

Quantifying the positional relationships of labeled receptors, pre or post synaptic puncta, relative to neuronal dendrites, cell bodies or other structural objects in the field.
Quantifying the object-based colocalization of multiple pre or postsynaptic markers. Labeling pattern is represented by puncta (small spheroids) in 2D or 3D volumes.
Measuring the nearest neighbor distance in a single population of neurons, or other receptor or synaptic markers.

Get XTension Bundle 2

XTensions included:

Spots close to filaments
Spots close to surfaces
Distance transform
Spots to Spots closest distance
Colocalize spots
Triple spots colocalization

3. Biofilm Analysis XTension Pack

Shape and structure characteristics of 3D reconstructed biofilm volumes, any other surface object or cell
Mean thickness (vertical z-axis)
Localized thickness values (2D or 3D thickness heat maps)
Max Thickness (per object)
Roughness (Variance)
Measurements over time lapse

Get XTension Bundle 3

XTensions included:

Biofilm analysis

4. Cell biology XTension Pack – “Intra/extracellular relationships”

Quantifying the positional relationships of endosomes, vesicles, membrane receptors, relative to mitochondria, cell bodies, nuclei or other structural objects in the field.
Quantifying the object-based colocalization of multiple vesicle markers. Labeling pattern is represented by puncta (small spheroids) in 2D or 3D volumes.
Visualization and quantification of overlap region and contact area between two 3D structures
Measuring the nearest neighbor distance in a single population of cells, or other cell structure or vesicular markers.
Distribution of cell components or proteins (quantitate changes in the distribution of nuclear proteins relative to the membrane)
Making 2D correlations between focis Surfaces and cells (or nuclei ) Surfaces

Get Xtension Bundle 4

XTensions included:

Spots Close to Surfaces
Distance transform
Spots to Spots closest distance
Colocalize Spots
Triple Spots colocalization
Surface-Surface Coloc
Surface Contact Area
XT Counting Foci
Vescicle Outside Cell

5. Object Colocalization XTension Pack (various disciplines)

Colocalization of 2 or 3 different types of puncta objects in 2D or 3D space (in time). Objects colocalize if they are closer to one another than the user-defined distance threshold
Visualization and quantification of the overlap region between two 3D reconstructed volumes of interest
Visualization and quantification of the contact area between two 3D reconstructed volumes

Get Xtension Bundle 4

XTensions included:

Colocalize Spots
Triple Spots Colocalization
Surface-Surface Coloc
Surface Contact Area

6. XTension Pack for Advanced Object Movement Analysis

Performing the mean-square-displacement (MSD) analysis to determine the displacement mode of particles over time. Assessing whether the particle is: freely diffusing, transported, bound and limited in its movement. Estimation of the parameters of the movement, such as the diffusion coefficient.
Plotting tracks from a common origin in 2D or 3D space
Additional method for segmenting time series applying an adaptive threshold through time useful for handling bleaching.
Measuring angles between 2 tracks
Measuring movement direction in relation to the reference object

Get Xtension Bundle 6

XTensions included:

Mean Square Displacement
Translate tracks
Plot all tracks with a common origin
Track Angles
Plot Angles of Selected Tracks
Auto Segment Channel

7. Image processing XTension Pack

Accelerated 3D deconvolution of confocal microscopy images on nVidia graphics cards.
Improving image contrast for all layers
Adjusting brightness of all time points in the data set to a uniform level

Get Xtension Bundle 7

XTensions Included:

YacuDecu
Histogram Equalize Layers
Normalize Time Points

Website by Miramar Communications Ltd

Imaris Software

Request Imaris Demo Download Link

Imaris Stitcher

Imaris Viewer

Imaris File Converter

XTensions

1. Neuroscience XTension Pack 1 “Morphology and intensity analysis”

2. Neuroscience XTension Pack 2 – pre/post synaptic “Relative object distance analysis”

3. Biofilm Analysis XTension Pack

4. Cell biology XTension Pack – “Intra/extracellular relationships”

5. Object Colocalization XTension Pack (various disciplines)

6. XTension Pack for Advanced Object Movement Analysis

7. Image processing XTension Pack