Phase contrast microscopy (PCM) is widely used as the de facto light microscopy modality for the inspection of adherent cell cultures. PCM enables the observation of transparent cellular specimens by transforming phase shifts (induced by differences in refractive index between the sample and the surrounding medium) into changes in amplitude, which are readily detectable by the human eye or a digital camera. Automated segmentation of PCM images is made challenging by artefacts that are intrinsic to the method. The ‘shade-off effect’ results in low contrast between the interior of cellular objects and the image background, and bright halo artefacts around cellular objects commonly occur.
Enables cell lineage tracking. MicrobeTracker utilizes cell shape and timelapse information to achieve cell outlining. It can track fluorescently labeled molecules in cell lineages over several generations or in difficult-to-resolve samples, such as densely-packed or filamentous cells, from time-lapse sequences. This tool is delivered with an accessory tool, called SpotFinder, that detects small round spots, generating precise cell coordinates of fluorescently labeled foci inside cells.
Serves for effective segmentation of multidimensional datasets. MIB can recognize several number of imaging formats and offers a variety of image processing tools. It also simplifies utilization and quantification of acquired data. It permits users to segment large datasets, to realize 3D visualization, and to quantify images and models. Its parameters enable users to insert plugin s to customize the program for specific needs.
Enables analysis of cell processes, evaluation of cell quality, and discovering of biomarkers. StemCellQC is a program that can serve as a quality control tool in clinics that deliver therapies based on pluripotent stem cells. It can evaluate pluripotent stem cell colony processes and quality before use in experiments or clinical applications.
Allows to visualize and present your images in several dimensions. The functionality of this imaging toolbox expands constantly with a wide range of different modules that are tailored to specific applications or microscope accessories. AxioVision offers countless functions for applications in the field of biological and medical routine research.
Allows identification and measurement of object outlines. SHERPA provides an image processing workflow mainly developed for analyzing diatom valves and enabling mass screenings. The degree of identification reliability reflects both the range of templates used and the diversity present in the analyzed samples. The software can also handle other object classes. Data exported by this program can be used in further analyses.
Offers a platform for high content image analysis. CellVigene is an application made for the quantitation signal intensity and area in multiple channel or level. It includes features for automating the detection of micronuclei and nuclei, for quantifying pathologies as well as to perform mitotic spindle localization. This software can also be used for tissue microarray analysis and includes a module for 3D visualization of a composite image.
Segments nearly elliptic objects via parametric active contour. E-Snake applies an active contour (named snake) segmentation method by using exponential splines as basis functions to represent the outline of the shape. This ImageJ plugin emulates elliptical and circular shapes and can produce an approximation of any closed curve in the plane. These proprieties can be useful to delineate cross sections of cylindrical-like conduits and to outline blob-like objects.