Commercial

arivis Vision4D

Collection
Description

arivis Vision4D is a modular software for working with multi-channel 2D, 3D and 4D images of almost unlimited size independent of available RAM. Many imaging systems, such as high speed confocal, Light Sheet/ SPIM and 2 Photon systems, can produce a huge amount of multi-channel data, which arivis Vision4D handles without constraints. Terabyte ready arivis Vision4D main functionality: Easy import of most image formats from microsopes as well as biological formats High performance interactive 3D / 4D rendering on standard PCs and laptops with 3D Graphics Support Intuitive tools for stitching and alignment to create large multi-dimensional image stacks Immediate 2D, 3D and 4D visualization, annotation and analysis regardless of image size Creation, import, and export of 4D Iso-surfaces Powerful Analysis Pipeline for 3D /4D image analysis (cell segmentation, tracking, annotation, quantitative measurement and statistics, etc) Semi-automatic/manual segmentation and tracking with interactive Track Editor Easy design and export of 3D / 4D High Resolution Movies Seamless integration of custom workflows via Matlab API and Python scripting Data sharing for collaboration A user friendly software, easy to learn and use for any life scientist

has topic
Bioimage informatics
has function
Image analysis
Image annotation
Data handling
Image processing
Image visualisation
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Labview

Collection
Description
A commercial software traditionally used in Industry and Engineering/Science to enable fast software development and deployment of a very broad range of devices control. Labview enables graphically oriented programming (no text-based coding) and offers many ready-made tools to perform basic tasks on complex data (including image data), maths operation, data handling and representation. For Image processing and analysis, Labview offers the integrated "NI Vision" tool, used in image-based quality control of production lines with a broad selection of Image-based filters/operations. In microscopy, Labview can be used efficiently to perform any kind of instrument control, and in particular "Feedback Microscopy" (also called intelligent microscopy, etc...) where the live analysis of a captured image will update the target of the microscope to make it understand where to image efficiently.
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Visiopharm

Collection
Description

The software is designed for pathologists. Image analysis protocols are built from graphical user interfaces; there is no need for programming experience or an extensive training program. Cloud and deployed solutions are available. Visiopharm can be employed to develop workflows (apps) for the user. Modular structure with multiple packages: VisiomorphDP™ TissuemorphDP™ Arrayimager™ Tissuealign™ Visiomorph™ Tissuemorph™ Microimager™ Fluoimager™

Visiopharm screenshot

MountainsMap

Collection
Description
MountainsMap is a surface imaging and metrology software published by the company Digital Surf. Its main application is micro-topography, the science of studying surface texture and form in 3D at the microscopic scale. The software is used mainly with stylus-based or optical profilometers, optical microscopes and scanning probe microscopes. MountainsMap is mainly offered as embedded or optional OEM analysis software by most profilometer and microscope manufacturers, usually under their respective brands; it is sold for instance as: MountainsMap - X on Nikon's microscopes Leica Map on Leica's microscopes ConfoMap on Carl Zeiss' microscopes
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2D and 3D mitochondrial shape analysis and network properties

Workflow
Description

The original paper describes a method to analyze mitochondrial morphology in 2D and 3D.

has topic
Confocal fluorescence microscopy
has function
Analysis
Image segmentation
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