Contents

Image Title Category Type Description Updated
BigDataViewer Software Component

The BigDataViewer is a re-slicing browser for terabyte-sized multi-view image sequences. BigDataViewer was developed with multi-view light-sheet microscopy data in mind and integrates well with Fiji's SPIMage processing pipeline.

01/30/2018 - 12:34
NeuriteTracer Software Workflow

"The plugin analyzes fluorescence microscopy images of neurites and nuclei of dissociated cultured neurons. Given user-defined thresholds, the plugin counts neuronal nuclei, and traces and measures neurite length."[...]" NeuriteTracer is a fast simple-to-use ImageJ plugin for the analysis of outgrowth in two-dimensional fluorescence microscopy images of neuronal cultures. The plugin performed well on images from three different types of neurons with distinct morphologies."

04/27/2023 - 12:58
intelligent Matrix Screener Remote Control Software Workflow

Integrates hardware control of Leica microscopes (via CAM), image analysis (e.g. via ImageJ, Matlab), and adaptive automatic screening of identified regions of interest.

01/28/2018 - 12:16
User interface of SuRVoS showing example annotation on soft x-ray tomography data SuRVoS Software Component

SuRVoS: Super-Region Volume Segmentation workbench

A volume is first partitioned into Super-Regions (superpixels or supervoxels) and then interactively segmented by the user providing training annotations. SuRVoS can then learn from and extend the annotations to the whole volume.

10/18/2018 - 17:38
Bigwarp screenshot Bigwarp Software Component

Bigwarp is a tool for manual, interactive, landmark-based deformable image alignment. It uses the BigDataViewer for visualization and navigation, and uses a Thin Plate Spline implemented in Java to build a deformation from point correspondences.

03/06/2023 - 15:02
BigStitcher Software Collection

The BigStitcher is a software package that allows simple and efficient alignment of multi-tile and multi-angle image datasets, for example acquired by lightsheet, widefield or confocal microscopes. The software supports images of almost arbitrary size ranging from very small images up to volumes in the range of many terabytes, which are for example produced when acquiring cleared tissue samples with lightsheet microscopy.

01/28/2018 - 12:42
need a thumbnail FracLac Software Collection

FracLac is for digital image analysis. Use it to measure difficult to describe morphological features.

10/30/2019 - 14:18
need a thumbnail MOST-Raytracer Software Component

This project was designed for vectorize and analyze the  blood vessels in the mouse brain.

This plugin requires the definition of seed point detection settings by the user (Semi-automated).

09/14/2017 - 18:58
Simple Tracing - DT-fields Simple Tracing DF-Tracing Software Component

We have developed a novel approach, named DF-Tracing, to tackle this challenge. This method first extracts the neurite signal (foreground) from a noisy image by using anisotropic filtering and automated thresholding. Then, DF-Tracing executes a coupled distance-field (DF) algorithm on the extracted foreground neurite signal and reconstructs the neuron morphology automatically.

05/03/2023 - 16:39
OpenCV / Machine Learning Software Collection 11/14/2019 - 14:16
OpenCV / Image Stiching Software Collection 11/14/2019 - 13:59
OpenCV / Image Processing Software Collection 11/14/2019 - 12:50
OpenCV / High-level GUI Software Collection

While OpenCV was designed for use in full-scale applications and can be used within functionally rich UI frameworks (such as Qt*, WinForms*, or Cocoa*) or without any UI at all, sometimes there it is required to try functionality quickly and visualize the results. This is what the HighGUI module has been designed for.

It provides easy interface to:

11/14/2019 - 12:17
OpenCV Logo OpenCV / flann. Clustering and Search in Multi-Dimensional Spaces Software Collection 11/14/2019 - 11:18
OpenCV Logo OpenCV / Computational Photography Software Collection 11/13/2019 - 13:23
OpenCV Logo OpenCV / Camera Calibration and 3D reconstration Software Collection 11/13/2019 - 13:03
OpenCV Logo OpenCV / CUDA Software Collection

The OpenCV CUDA module is a set of classes and functions to utilize CUDA computational capabilities. It is implemented using NVIDIA* CUDA* Runtime API and supports only NVIDIA GPUs. The OpenCV CUDA module includes utility functions, low-level vision primitives, and high-level algorithms.

05/03/2023 - 16:42
OpenCV Logo OpenCV / Biologically Inspired Vision Models and Derivative Tools Software Collection

The module provides biological visual systems models (human visual system and others). It also provides derivated objects that take advantage of those bio-inspired models.

03/03/2020 - 11:06
OpenCV Logo OpenCV feature2d module Software Collection 10/18/2019 - 17:35
need a thumbnail R Software 09/14/2017 - 15:56