Image Quality Control webinar

Huygens Deconvolution Wizard.

Since Huygens 21.10.1p0, the Deconvolution Wizard has also undergone some major changes. As of now, the deconvolution algorithm and SNR are automatically set to ensure optimal results for each single image. Still, they can be edited according to your preference, and the Deconvolution Preview option helps you with adjusting these settings by showing a fast preview of the result within a Region Of Interest (ROI). A slider and parameter field for adjusting the 'Acuity' have been introduced to further smoothen/sharpen the deconvolution result. This allows you to leave the SNR parameter to its real SNR value.(24 min)

Huygens Everywhere. During this webinar, you will see that Huygens Everywhere is the ideal solution for microscopists who like to use Huygens on whatever online computer that is available, and who like to use it simultaneously. The use of Everywhere will be explained for users and for the Everywhere license owner. In addition, we will demonstrate how the Everywhere owner can easily manage the use of Everywhere via the SVI User Portal, and obtain user statistics. (11.59 min)

Deconvolution Workflow Processor Design batch image processing tasks with a simple drag and drop of steps like deconvolution or chromatic aberration correction using Huygens Workflow Processor. (12.18 min)

Running pipelines via Huygens Command Line Interface, HRM, and Workflow Processor. . The Huygens Core is ideal for computer nodes, large scale 64 bit multiprocessors, and systems with multiple (high-end) Nvidia GPU cards. It can now be called from any pipeline environment using our new Command Line Interface (CLI). Run all of Huygens' Workflow Processor tasks, with a node/job managment software such as SLURM (Trademark of SCHEDMD LLC), or from an analysis pipeline scripted with for example Jupyter (Trademark of NumFOCUS foundation). Alternatively, you can use the customizable front-end Huygens HRM. We'll also address during this webinar the new tasks added to the Workflow Processor, such as crosstalk correction and the 3D Object Analyzer. (15.29 min)

Huygens scripting with Python. With the new Python interpreter in Huygens Professional, you can access all of our image processing algorithms in a more familiar way. You can use individual commands directly in the Python shell in the main window, or write Python scripts for more complex operations. In this webinar we'll give a quick overview of how to use our Python operations, how to run scripts, and how to use custom modules for even more functionality. Basic Huygens Python operations can be used with little to no knowledge of the Python language, yet a quick refresher may help before checking out this webinar. (42 min)

Image File formats and Data types 'How should I save my images', a question that is often heard. This Webinar provides an answer to this question, and will also address related topics such as dynamic range, image scaling, bit depth, vendor and open source file formats, data compression, image dimensions, and metadata. In addition;, we will show you that Huygens supports many formats for opening and saving image data, and that Huygens Workflow Processor is the ideal tool for converting image dimensions and file formats. Also in a batch-wise fashion. Join this webinar and become an expert in image file formats! (32.50 min)

What's New 24.04 Webinar. We are very excited to introduce our brand-new Image Quality Control (QC) option in this Huygens version. The QC option can be added to Huygens Essential and Professional to automatically detect the most common imaging issues, such as bleaching, clipping, hot & cold pixels, crosstalk, chromatic aberration, drift, etcetera. When detected, these issues can be further reviewed and corrected with the corresponding Huygens restoration options (see also our next webinar). Many of you will also appreciate the redesigned user interface of the Object Analyzer and Surface Renderer, which has become much more user-friendly with extendable panels, various new icons for easy navigation, a bar for your favorite buttons, and much more. Within the Object Tracker, it is now easier to detect and fix possible flaws in the tracks and to add missed nodes to tracks. In addition to these new features, the Batch Feeder allows you now to change the depth of subfolders of the input data, to recursively search for images, and to preserve the folder structure of subfolders as found in the input folder in the output folder. Also, the Batch Feeder can automatically run the processing of when it is set to start on startup. To hear more about this and all the other new improvements in Huygens 24.04. (11.08 min)

Batch Express. The Huygens Batch Express option allows instant deconvolution of all your acquired images independent how you acquired them. It makes use of smart templates and the high-quality deconvolution algorithms in Huygens to restore your images in a matter of seconds.(9.25 min)

Deconvolution Express. The Huygens Deconvolution Express option makes use of smart templates and the high-quality deconvolution algorithms in Huygens to restore your images in a matter of seconds. (1.56 min)

Huygens Remote Manager Webinar (February 11, 2020): This webinar will give you practical guidelines how to optimally use the Huygens Remote Manager with the Huygens Core. HRM is ideally suited for high-throughput deconvolution and allows access to Huygens via the web-browser, providing an easy multi-user access to Huygens deconvolution. HRM has an optimized interface connection to the open source OMERO server, and also allows you to perform Colocalization Analysis in batch mode and visualize deconvolution results. (26.06 min)

Array Detector Webinar (June 10th, 2022): In this webinar we will show how you can measure the quality of your specific array detector setup using Huygens Array Analyzer for Quality Control. Also, example images will be shown of typical artifacts that arise when using incorrect restoring approaches for array detector data. Furthermore, Huygens unrivalled Super-sampling mode will be explained which permits you to image much faster at twice the Nyquist pixel size and nonetheless obtain a significant resolution increase. Huygens renowned PSF Distiller is also addressed for obtaining Array Detector PSFs that reflect the specific aberrations of your Array Detector microscope to further optimize the deconvolution results. (18.46 min)

New Quality Control tool for Array (Airyscan) Detector images webinar (October 4, 2022): This webinar will give a short summary of our previous Array Detector (AD) webinar, and we'll demo the new Quality Control tool. This tool automatically calculates and visualizes the relative positions and intensities of each used detector to the central detector. By making optimal use of this position and intensity information, Huygens Array (Airyscan) Detector deconvolution is able to separate objects less than 70nm apart and produce reliable and quantifiable results. We will also show you how to identify incorrect AD image processing. (16.57 min)

Huygens Light Sheet Decon & Fuser Webinar (2020): The brand-new interactive Huygens Fuser option can fuse multiview images from a variety of different Light Sheet micrscopes and also allows the deconvolution of the images within its fusion workflow. Alignment of multiview images is very interactive and offers direct visual feedback so that you as a user are in full control. (12:30 min)

Huygens 2D & 3D Localizer webinar (19th of November 2019): Will show that 2D and 3D Single Molecule Localization Microscopy (SMLM) images acquired with PALM, STORM, GSD, or (DNA)-PAINT can be efficiently analyzed with the HUYGENS LOCALIZER. Huygens 2D & 3D Localizer is highly parallelized for CPU and GPU, and offers high-quality localization results in real-time. The easy-to-use wizard helps you with the optimization of the detection and pre/post processing settings, and includes various fitting algorithms, powerful background estimation methods, automatic drift correction, and interactive rendering and analysis. New is also the option to batch process SMLM data. (20:30 min)

Huygens STED deconvolution and optimal processing of STED data (March 23th, 2023): Whether you are performing STED imaging on an Abberior, Leica or custom-build microscope, optimal STED deconvolution requires a PSF that considers specific STED parameters such as saturation and immunity of the fluorophores, and percentage of 3D depletion. Huygens unique STED theoretical PSF model and PSF distilling option include exactly these parameters. Complemented with state-of-the-art image stabilization and noise handling, Huygens quarantees that you to get the best possible results from your raw STED data. During this webinar, we will also discuss the image feeder and stitching option. (32.57 min)

Analyzing objects within other objects and object organization, using clusters and convex hull operations (24th of October 2023): This webinar focuses on the analysis of the organization or properties of objects, and the grouping of objects within other objects such as for example nuclei or cells. Huygens Object Analyzer can count and analyze the properties of objects within objects (cells, nucleus, organelles) in the other channel. The organization of objects can also be determined within just a single channel by clustering them using the Cluster Analyzer. And, geometric analysis of clusters is facilitated with the newly implemented convex hull option, which basically works like placing a rubber balloon around a cluster of objects. Convex hull based analysis also can aid the analysis of non-homogeneously stained objects, as is often the case with for example DAPI-stained nuclei. The ‘rubber balloon’/convex hull of the object then helps to fill the holes in the segmentation for the non-homogeneous staining. (18:20 min)

Huygens Cluster Analyzer (22nd of November 2022): This webinar shows you how to use the FOCAL and DBSCAN algorithm to cluster localizations in Huygens Localizer. Clusters are counted on-the-fly and rendered at the highest possible quality with ray-tracing based iso-surface rendering. You can measure volumes, localization density, width, length, and many other parameters quickly. Clear tool tips and an in-tool tutorial makes that the learning curve is really steep. (27:30 min)

Huygens LUT Contrast Editor (25th of October 2022): In this webinar, we will explain the new Look-Up Table (LUT)/Contrast Editor in Huygens Twin Slicer and (Twin) MIP renderers. The LUT/Contrast Editor helps you to make easy intensity comparisons between images, map image intensities to colors, and make high quality images. (14:15 min)

Huygens 3D Visualization Webinar (15th of October 2019): This webinar gives an overview of the many improvements that we have lately implemented in the three Huygens 3D rendering options, which are the SFP renderer, Surface Renderer, and MIP renderer. Among other features, these renderers are now GPU accelerated and as a result much faster, animation settings have been expanded, a perspective view has been added as well as a cutting plane. (14:15 min)

Object Analysis with Huygens (3rd of July 2018): Huygens deconvolution improves resolution, contrast and signal to noise ratio in the images. Because of this, the analysis of the deconvolved images is more accurate and robust. The analysis can be performed using the Huygens Object Analyzer. The interactive object analyzer tool for 3D microscopy images in Huygens Essential and Huygens Professional allows you to obtain statistics of individual objects by clicking on them, or analyzing all objects with a single button press. The image is segmented, the objects can be filtered and grouped in Regions of Interest, and the images are then analyzed for Geometrical data, Spatial location, Relation with neighbors, Relation with reference objects, Degree of overlap (colocalization).(49.57 min)

Huygens Colocalization analyzer Colocalization studies provide an important insight on several biological processes, and Huygens can help you in getting the most accurate colocalization results. Huygens deconvolution improves resolution, contrast and signal to noise ratio, reducing the effect of Blur And Noise in Colocalization studies. Our Restoration Options also correct the images for the other aberrations, getting them ready for an accurate analysis. For what concerns the analysis, the Colocalization Analyzer works more at the level of the whole image, and the Object Analyzer also provides colocalization measurements at the object level.(29.00 min)

Surface renderer. This tutorial video shows you how to use the Huygens Surface Renderer to represent your microscopy data in a convenient way to clearly see separated volumes, with Iso Surface rendering (4.14 min)

The Object Tracker. Video from a workshop about the Huygens Object Tracker, giving a in depth demonstration of the Huygens Object Tracker and Track Analyzer. (18.32 min)

Movie Maker. A tutorial about the Huygens Movie Maker, giving a short demonstration on how to use the Movie maker and showing some examples made with the tool. (6.41 min).

Image Quality Control Webinar. Ensuring high-quality images is key in obtaining accurate analysis results from microscopy data. However, checking image quality is a difficult and time-consuming task. In our upcoming webinar, we unveil our latest innovation: the Microscopic Image Quality Control feature for Huygens Essential and Professional. This cutting-edge option meticulously checks your images within seconds, detecting a comprehensive range of potential issues. From clipping and hot or cold pixels to crosstalk, chromatic aberration, and metadata discrepancies. No stone is left unturned! Upon analysis, detailed reports are generated, offering clear insights into any identified issues. With intuitive infographics accessible via the 'Help' menu, the findings can be easily understood. Furthermore, options are provided for immediate correction of these issues, ensuring your images are primed for precise analysis. A free version of this QC option is already available online. While this version evaluates images for a subset of issues, it delivers concise reports in a downloadable PDF format, empowering users with valuable insights into their image quality. (24.38 min)

Spherical aberration correction using deconvolution. Common to imaging thick samples is the distortion and attenuation of structures located deeper within the specimen. This phenomenon stems from the enlargement of the point spread function (PSF) due to spherical aberration, triggered by a mismatch in refractive index (RI) between the sample and the lens immersion medium. Despite efforts to match the RI or use complex hardware solutions, achieving a perfectly spherical aberration-free image is hard to achieve. Fortunately, the Huygens Software offers a simple and effective solution within its deconvolution options! In this webinar, we will explain how to use Huygens for the on-the-fly correction for spherical aberration, and present image data which demonstrates the improvements that can be obtained. (30.34 min)

Low signal image data Webinar. Optimize image restoration and acquisition! The significant increase in signal that can be obtained with Huygens deconvolution (can be >8x) not only improves the resolution and contrast within your images, but also allows you to re-design your image acquisition experiment. By taking this approach, you can minimize photo-bleaching and toxicity issues, shorten your time sampling, and image for longer time periods. This will all greatly benefit your (time series) imaging. A special focus will be on image acquisition, super-resolution imaging, and Array (Fast-Airyscan) Detector deconvolution. (18:44 min)

True Deconvolution Webinar The essence of using Deconvolution is to reverse the Convolution process, which is how a microscope distorts images. Since convolution involves object blurring by the microscope type-specific point spread function (PSF), it is crucial that this PSF is accurately calculated or measured, and included in a deconvolution procedure with the best possible algorithms. These are currently MLE-based as implemented by Huygens. In this webinar, we will explain image acquisition and what true deconvolution includes. After this webinar, you have learned about the potential limitations of other image enhancement techniques and know how to obtain the most reliable and accurate results from your valuable image data. (27:31 min).

Stitching in Huygens Webinar (17th September 2019): During this webinar will discuss the Huygens Stitching & Deconvolution wizard. The Stitching & Deconvolution option is GPU accelerated, and offers a unique easy-to-use wizard for combined high-quality stitching for all types of microscopy data with the additional option to deconvolve the images, and to correct for vignetting issues. Vignetting correction can be performed manually and in a full automated fashion. The Stitching & Deconvolution Wizard is available for Huygens Essential and Huygens Professional. (14.22 min)

The PSF Distiller. The Huygens PSF Distiller can be used with imaged beads to measure a point spread function that can then be used with image deconvolution. This tutorial video shows the ins and outs of PSF distillation. (7.31 min)

The Object Stabilizer. The Huygens Object Stabilizer can measure and correct for cell motion, thermal drift, shaking, and other types of movement (x-y-z translation and axial rotation). Both the measurement and subsequent stabilization are done in 3D and at sub-pixel level. The Stabilizer not only stabilizes 2D or 3D time series, but it also allows the alignment of z-slices within a 3D stack. (12.28 min)

This webinar on the new Chromatic Aberration Correction options features a brand-new easy-to-use Wizard, 14 different correction parameters for experts, and a template option for correcting many images in batch mode with the Workflow Processor. (25.52 min)

The Crosstalk Corrector. The Huygens Crosstalk Corrector estimates and corrects for crosstalk, also known as bleedthrough. Crosstalk can occur if there is spectral overlap between different channels, and signal is recorded from a specific dye whereas the detector is already reserved for another dye. Crosstalk in multi channel images up to 32 channels can be easily estimated, visualized, and corrected with this tool. (6.59 min)