Image reconstruction software tools | Super resolution imaging analysis
Super-resolved structured illumination microscopy (SR-SIM) is an important tool for fluorescence microscopy. SR-SIM microscopes perform multiple image acquisitions with varying illumination patterns, and reconstruct them to a super-resolved image. In its most frequent, linear implementation, SR-SIM doubles the spatial resolution. The reconstruction is performed numerically on the acquired wide-field image data, and thus relies on a software implementation of specific SR-SIM image reconstruction algorithms.
Allows users to perform rapid imaging of moving vesicles or loops in the endoplasmic reticulum without motion artifacts. Hessian-SIM is able to reconstruct actin filaments with high fidelity using a low photon budget, which substantially extends the ability to obtain usable super-resolution (SR) images from time-lapse experiments. It permits utilization of sub-millisecond excitation pulses followed by dark recovery times to reduce photobleaching of fluorescent proteins.
An iterative algorithm that converges to the maximum likelihood estimate of the position and intensity of a single fluorophore. An implementation of the algorithm on graphics processing unit hardware achieved more than 10(5) combined fits and Cramer-Rao lower bound calculations per second, enabling real-time data analysis for super-resolution imaging and other applications.
A set of programs to aid in the acquisition and image analysis of data in “photoactivated localization microscopy” (PALM) and “stochastic optical reconstruction microscopy” (STORM). QuickPALM provides a complete solution for acquisition, reconstruction and visualization of 3D PALM or STORM images, achieving resolutions of ~40 nm in real time. This software package should greatly facilitate the conversion of many laser-excitation widefield or TIRF microscopes into powerful super-resolution microscopes.
Provides a complete set of tools for automated processing, analysis and visualization of data acquired by single-molecule localization microscopy (SMLM) methods. ThunderSTORM is a program that offers many different processing and post-processing methods so that users can adapt the analysis to their data. It is able to process the data using any combination of the implemented feature enhancing, spot detection and fitting methods.
Enables super-resolved structured illumination microscopy (SR-SIM) reconstructions for a large range of SR-RIM platform. FairSIM works with all image formats supported by ImageJ. It uses two and three-beam interference for pattern generation to process single-slice reconstructions of SR-SIM systems compatible. This software provides access to several intermediate results of the parameter estimation and reconstruction process in both frequency and spatial domains.
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