Size 3.956 MB 0 seeders Added 2011-06-15 16:59:53
BioImageXD is a software package for processing, analyzing and visualizing multidimensional image data. As the name implies, the software is primarily intended for biological data, for instance confocal microscopy images of living cells, but it is fully suitable for working with any kind of multidimensional image data. BioImageXD has a simple, intuitive user interface based on a single large window, and its operations have been designed to be consistent and functional. BioImageXD will offer advanced file input/output functions and multiple visualization modes (ranging from simple 2D slice view to advanced 3D rendering). These can be freely combined with any of the numerous task modes (including channel merging, colocalization analysis, intensity correction and various filters for removing noise, segmentation, tracking, measurements etc.). The built in animater allows you to create stunning movues as it has full control of camera pathsm time point changes and viewing angles.BioImageXD main features:Image Viewing:Open data in common microscopy formats (or images or stacks of images, and time series), and view the data image by image.Image processing:Adjust colour / brightness / contrast / gamma, change colour or palette of a dataset/channel, filter out noise, correct for fluorescence bleaching in time series data.3D volume rendering:3D datasets can be interactively volume renderedMovie making:Use the Animator module to set up a camera path around your 3D data, and make a movie of it spinning and fly though zooming any way you like. Time series data are supported: "4D data".Colocalisation analysis:We know all you cell biologists using confocal microscopy are always looking for colocalisation! Our colocalisation tool allows you to analyse the colocalisation of signal intensity in a multi channel 3D data set, avoiding the problem of false colocalisation seen in z-stack projection images, and perform some statistical analyses that give you hard numbers about the amount and quality of colocalisation in your data. Uses similar algorithms to those in imageJ, for instance the WCIF plugin for Automatic Colocalisation Thresholds, using the method of Costes et al.AFM image viewing:Atomic force Microscopy and related imaging techniques make images that can be rendered as 3D surfaces. We can also add some useful image filters and the like. Maybe have some kind of AFM shape - PDB or cryoEM structure/model fitting tool. Comaprison of cell surface height images with confocal 3D datasets.Multiprocessor, parallel computing, clusters and supercomputers:As part of the FinHPC project we plan to enable BioImageXD to run image processing and other functions in parallel and with CPU specific vectorised code (Altivec/velocity engine on G4 and G5, and MMX SSE SSE2 SSE3 on ix86), on desktop computers, clusters, workstations, servers, and super computers with large shared memoryWhat's new in BioImageXD : Bug fixesPossibility to save file tree when exiting BioImageXDOverall better memory handlingPossibility to group different channels for multi channel 3D visualization (group using right button of mouse)Improved batch processing (fixed some crucial bugs)Improved animation (fixed some crucial bugs)Improved support for other than 8-bit dataImproved menu and process task structuresImproved tracking tool which can create new tracks between time pointsAnalysing surface and distance of objects to it (Convert to polygonal data and Analyze polydata filters)Translation registration methods (Multi Resolution Translation Registration 3D and Translation Registration 3D filters)Object separation toolPossibility to concatenate time series (Concatenate time series filter)Moved ROI processing tools to Process taskOther new filters: 3 different distance calculation methods, Sobel edge detection, Grayscale fill hole, Automatic background subtraction method, Multiple threshol...
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