Is Just ImageJ Fiji is an image processing package. It can be described as a distribution of ImageJ (and ImageJ2) together with Java, Java3D and a lot of plugins organized into a coherent menu structure. Fiji compares to ImageJ as Ubuntu compares to Linux. The main focus of Fiji is to assist research in life sciences. For users, Fiji is easy to install and has an automatic update function, bundles a lot of plugins and offers comprehensive documentation. For developers, Fiji is an open source project hosted in a Git version control repository, with access to the source code of all internals, libraries and plugins, and eases the development and scripting of plugins. Download Fiji now List of Update sites How to cite Fiji? Collaboration The Fiji project is driven by a strong desire to improve the tools available for life sciences to process and analyze data. News Subscribe to an RSS or Atom feed of the Fiji news. Browse the news archive. Documentation Using Fiji Advanced Fiji usage Developing for Fiji Projects ImgLib2
Interactive Flash Tutorials | Matching Probes with Filter Blocks Matching Fluorescent Probes with Nikon Fluorescence Filter Blocks Modern fluorescence microscope instrumentation employs a combination of interference filters and a dichromatic beam splitter to satisfy the excitation and emission requirements of the fluorescent probe(s) used to label the specimen. When these components are chosen appropriately, the microscope provides an essential mechanism for selective excitation of specimen fluorophores, and the subsequent isolation of much weaker fluorescence emission necessary for image formation. By carefully matching excitation and emission filter properties with the function of the dichromatic beamsplitter, labeled specimen features are imaged on a dark background with maximum sensitivity. To operate the tutorial, first choose a filter combination using the Nikon Filter Set pull-down menu on the right-hand side of the tutorial window.
ImageTool UTHSCSA ImageToolVersion 3.0 Final is Here Overview What is ImageTool? UTHSCSA ImageTool (IT) is a free image processing and analysis program for Microsoft Windows 9x, Windows ME or Windows NT. ImageTool was designed with an open architecture that provides extensiblity via a variety of plug-ins. ImageTool now has a complete scripting language built into the application. ImageTool provides for geometric transformations such as rotate, flip vertical, flip horizontal and magnification up to four levels. Spatial calibration is available to indicate real world dimensional measurements such as millimeters, microns, feet, miles, etc. for linear and area. ImageTool now provides for image annotation with text, arrows, rectangle, ellipses and polygon. ImageTool is in final release 3.0, we would appreciate any bug reports and suggestions to improve IT as a tool for imaging research. System Requirements Acknowledgements
Trainable segmentation | SPLab Burget, R., Karásek, J., Smékal, Z., Uher V., Dostál, O., RapidMiner Image Processing Extension:A Platform for Collaborative Research, International Conference on TELECOMMUNICATIONS AND SIGNAL PROCESSING, Baden Austria 2010 @article{burget2010rapidminer, author={Burget, R. and Karasek, J. and Smekal, Z. and Uher, V. and Dostal, O.}, journal={The 33rd International Conference on Telecommunication and Signal Processing, TSP}, volume={2010}, pages={114–118}, year={2010} This page describes a method for trainable segmentation. With the help of other participants, we are currently preparing a book that will focus on the basics of RapidMiner. This tutorial is really a brief and basic introduction into RapidMiner and IMMI and it demonstrates how to load images using RapidMiner and IMMI extension. This tutorial demonstrates how to select points for training. This tutorial demonstrates how to use „trainable segmentation“ operator.
SCIRun First, the original source of the geometry was MRI, as you have read. However, our interest in the bone data came later, and they were not visible enough in the MRI to extract from there. Instead, we acquired standardized rib and spine geometry and fit them to the torso model. With that said, there is considerable variation among patients with regard to heart shape and even location. Finally, gating to the R wave does not ensure systole in the images of the heart for several reasons. I hope that, with this information, you can see that the Utah torso geometry can, indeed, be trusted to reasonably representthe geometry of an adult human torso. We use XML-based .srn (SCIRun Network) files. The relative path support in the SCIRun network fields assumes the following: The SCIRun network files are located at a fixed relative location from the data. When this variable is set all filenames are exported in a relative fashion. To convert files, set the variable in the .scirunrc file.
CoolLED - Micro-Manager CoolLED's original product was known as precisExcite and at present the Micro-Manage software still knows it by that name. The names of the current current products controlled by this driver are pE-1, pE-2 and pE-Integrator. On Windows, first make sure the driver is installed (CoolLED-pEx.inf). (Mac OS X already has a driver that will recognize the virtual serial port.) Next, make sure the USB cable is connected, and that the module is powered up. precisExcite can be chosen as the default Shutter. The Trigger and TriggerSequence properties can be used for external triggering by TTL pulses.
Seg3D Build Machine Requirements To build Seg3D on Windows, you will need a 64-bit Windows machine, running Visual Studio 2008. You should also have CMake 2.8.5 or greater installed. Building Qt Installing Qt on Your System and Building from Scratch Download the open source version of Seg3D2. Building 32-bit and 64-bit Seg3D Most likely, both 64-bit and 32-bit Qt have been installed on the same system. In the Control Panel select System and go to Advanced Settings. Xcode 4.x Xcode installers from 4.3 onward do not install command line tools by default, but they can be installed after the main Xcode package has been installed. Possible CMake Issues on OS X 10.7 (Lion) The following warning may be seen while trying to configure a CMake project on OS X Lion: xcode-select: Error: No Xcode folder is set. To fix the error, the following should work: sudo /usr/bin/xcode-select -switch /Applications/Xcode.app/Contents/Developer/ Seg3D 2.1.5 and greater includes LaTeX documentation. Requirements Qt cmake .. .
Imaging Software - CoolLED CoolLED pE-1 and pE-2 excitation systems are designed as universal LED light sources with hardware connections for Ethernet, USB or D-type connectors (for TTL). Integration is straight-forward and CoolLED will be pleased to provide assistance to users wishing to take advantage of the benefits of automation of their light source. Companies which provide integration to CoolLED with their proprietary software are listed below. This list is constantly increasing. Please contact CoolLED if the imaging package you use is not listed. Products: Andor iQ and Luca RCompany: Andor Technology Products: SlideBook 4.2Company: Intelligent Imaging Innovations Products: Image-Pro/Scope-Pro and AFA Company: Media Cybernetics Products: Meta SeriesCompany: Molecular Devices CoolLED pE-1/2 series products will operate under USB control.. Products: AR/BR/D packages Company: Nikon Instruments Products: Cell^A, Cell^B, Cell^D, Cell^F, Cell^P, (Cell^R under direct TTL control), cellSens Company: Olympus Microscopes
LAMS - LED Modules - CoolLED CoolLED's pE-1 and pE-2 excitation systems use LAMs (LED Array Modules) to generate the LED wavelength of excitation. These modular LAMs can be interchanged by the user so that different wavelengths can be excited depending on the application. LAMs can carry either one or two separate LED wavelengths. For most applications a double wavelength LAM is appropriate. The graph below shows current availability. CoolLED's systems are able to recognise the different LAMs when they are fitted into the unit with the display automatically adjusting to reflect the set of LAMs installed. Each LAM is guaranteed for a three year period but is expected to last indefinitely. To ensure optimum performance, LED wavelengths, optical filters and fluorophores need to be matched.
Digital Camera Image Noise: Concept and Types "Image noise" is the digital equivalent of film grain for analogue cameras. Alternatively, one can think of it as analogous to the subtle background hiss you may hear from your audio system at full volume. For digital images, this noise appears as random speckles on an otherwise smooth surface and can significantly degrade image quality. Although noise often detracts from an image, it is sometimes desirable since it can add an old-fashioned, grainy look which is reminiscent of early film. Some noise can also increase the apparent sharpness of an image. Noise increases with the sensitivity setting in the camera, length of the exposure, temperature, and even varies amongst different camera models. Some degree of noise is always present in any electronic device that transmits or receives a "signal." The image above has a sufficiently high SNR to clearly separate the image information from background noise. Fixed Pattern NoiseLong ExposureLow ISO Speed
Interactive Java Tutorials | CCD Signal-To-Noise Ratio CCD Signal-To-Noise Ratio For any electronic measuring system, the signal-to-noise ratio (SNR) characterizes the quality of a measurement and determines the ultimate performance of the system. With a CCD (charge-coupled device) image sensor, the SNR value specifically represents the ratio of the measured light signal to the combined noise, which consists of undesirable signal components arising in the electronic system, and inherent natural variation of the incident photon flux. The tutorial initializes with the display of a graphical plot of signal-to-noise ratio as a function of integration (exposure) time for a hypothetical CCD system with specifications typical of high-performance cameras used in microscopy imaging applications. Sliders are provided for varying the CCD specifications for Read Noise (2 to 20 electrons rms per pixel) and for Dark Current (0.01 to 50 electrons per pixel per second). The CCD signal-to-noise ratio calculation in the tutorial uses the following equation: