Identifies cells of interest on imaging of large cell numbers in quantitative microscopy. Micropilot can automatically process complex fluorescence microscopy-based imaging assays. Users can train the software to detect objects in a fast low-resolution prescanning mode. This software is able to execute more complex imaging assays on selected object positions by following an online reconfiguration of the microscope system.
Offers a plugin for unusual biological samples mapping. µ-Magellan is an open-source program allowing users to perform high-throughput imaging on various levels of space and time in three dimensions. The application gives users the possibility to alter a wide range of settings including spatial regions or automated excitation calculations and to generate files which can be exported towards many software such as Vaa3D/TeraFly or Imaris.
Investigates and controls analysis elements for two-photon laser scanning microscopy (TPLSM) and other extensions. MPScope includes two components: an acquisition software named MView and MPFile, an analysis program that reads MPScope data files in user-written applications. This software can be used in different types of experiments such as in vivo cortical blood flow imaging and two-photon plasma-mediated ablation automated histology.
Allows users to implement and assemble control software for custom-built microscope systems. Helio provides a framework, built around a collection of components arrangeable according user needs, which can support multiple hardware and functional combinations. The application is able to handle a wide range of laser-scanning including galvanometric scan mirrors or resonant scanners as well as camera images.
A simple, software-based approach to operating a laser scanning microscope without the need for custom data acquisition hardware. Data acquisition and control of laser scanning are achieved through standard data acquisition boards. The entire burden of signal integration and image processing is placed on the CPU of the computer.
Stabilizes in vivo intravital microscopy images that suffer from soft-tissue background movement. StabiTissue quantifies the coincidence between image pairs from randomly distributed image regions. The method stabilizes the full 3D stack, aligning images within and across stacks. It provides an easy to use interface for the specific problem of stabilization. The method is more immune to noise and provides better performance for datasets’ possessing nonlinear tissue deformations.
A software package for control of automated microscopes. Together with the image processing application ImageJ, μManager provides a comprehensive, freely available, imaging solution. μManager has a simple and clean user interface, through which it lets you execute common microscope image acquisition strategies such as time-lapses, multi-channel imaging, z-stacks, and combinations thereof. μManager works with microscopes from all four major manufacturers (Leica, Nikon, Olympus and Zeiss), most scientific-grade cameras and many peripherals (stages, filter wheels, shutters, etc.) used in microscope imaging.
Allows automatization of complex microscopy protocols. YouScope is an open-source microscope control platform for implementing complex measurement protocols. The software enables users to perform single-cell imaging as well as microplate imaging on a motorized light-microscope. It also provides a set of tools and configurable measurement types. The platform offers a large set of plug-in interfaces, allowing existing protocols to be extended, and allowing creation of new protocols from parts of existing ones.
Aims to embed photon counting into most existing multi-photon imaging systems. PySight is a program dedicated to perform planar and volumetric imaging. It can calculate the difference between photon arrival times and the respective synchronization signals from the laser beam steering element. It integrates features for solving distinct laminar dynamics simultaneously sampled by the variofocal lens, rather than merely extending the effective depth of field using Bessel beams.
It is the ideal "glue" for easily integrating dissimilar fluorescent microscope hardware and peripherals into a single custom workstation, while providing all the tools needed to perform meaningful analysis of acquired images. The software offers many user-friendly application modules for biology-specific analysis such as cell signaling, cell counting, and protein expression.
A tool for creating and analyzing realistic, meaningful, and quantifiable neuron reconstructions from microscope images. Perform detailed morphometric analysis of neurons, such as quantifying: 1) the number of dendrites, axons, nodes, synapses, and spines, 2) the length, width, and volume of dendrites and axons, 3) the area and volume of the soma and 4) the complexity and extension of neurons.
Allows to acquire high resolution images in a very short period of time. CellSens helps users to combine a series of individual monochrome images into only one. It permits to assemble separate images that belong to different color channels. The software can also record a movie.
Represents an integrated solution for data analysis and acquisition. SymPhoTime 64 permits users to target principally the results rather than the data processing. The interface of this tool simplifies the utilization by the user for an individual analysis or measurement process. Different data acquisition modes including interleaved trains of excitation and stimulated emission depletion (STED) laser pulses are integrated in a graphical user interface (GUI).
Allows combined image and analogue signal acquisition and analysis. WinFluor is a program that enables users to simultaneously collect cell fluorescence image, patch clamp current and voltage signals. The software includes several features such as detection and analysis of event waveforms, display of excitation spectra, averaging of images or stimulus pulse generation.
Manages instrument control, image processing and data analysis. SlideBook can drive hundreds of devices including microscopes, stages, lasers, wheels, piezos, scanners or shutters. It acquires data in 3D format over time, color, and specimen locations in customizable experiment protocols. This tool offers a solution to investigate images and obtain statistical data via a wide variety of algorithms while maintaining original data integrity.
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