Image Title Category Type Description Updated
need a thumbnail CMake Software 02/28/2019 - 10:00
VascuSynth Software Workflow

VascuSynth is an ITK-based synthetic image generator. It synthesizes volumetric images of vascular trees and generates a .gxl file of the ground-truth tree structure. VascuSynth receives a number of .txt configuration files and is capable of generating both ground truth ('ideal') images and images with added noise. The user is capable of choosing from a set simple noise additions and artefacts.

02/28/2019 - 10:00
Nuclei Segmentation (CellProfiler) Software Workflow

This workflow processes a group of images containing cells with discernible nuclei and segments the nuclei and outputs a binary mask that show where nuclei were detected. It was developed as a test workflow for Neubias BIAFLOWS Benchmarking tool.

03/07/2019 - 18:32
need a thumbnail Nuclei Tracking (ImageJ) Software Workflow 02/26/2019 - 17:47
need a thumbnail 3D Fill holes (mcib3d) Software Component

Runs fill holes operation on 3D images.

02/26/2019 - 16:21
need a thumbnail Maximum (3D) VIB Protocol Software Collection

This component convolves the image with maximum filter. Each voxel is set to the maximum value of its neighborhood. The neighborhood is defined by a kernel, which has a diameter of 3 voxels.

02/26/2019 - 16:10
need a thumbnail Neuron Tracing 3D (ImageJ) Software Workflow 02/26/2019 - 16:53
need a thumbnail Nuclei Segmentation (Python) Software Workflow

This workflow processes images of cells with discernible nuclei and outputs a binary mask containing where nuclei are detected.

02/26/2019 - 13:03
need a thumbnail ROI Measure Software Component

ROI measurement plug-in for Icy.

02/26/2019 - 12:37
need a thumbnail Spot Detection (Icy) Software Workflow 02/26/2019 - 12:38
need a thumbnail Minimum (3D) Filter VIB Protocol Software Component

This component convolves the image with minimum filter. Each voxel is set to the minimum value of its neighborhood. The neighborhood is defined by a kernel, which has a diameter of 3 voxels.

02/26/2019 - 16:06
need a thumbnail Spot Detection 3D (ImageJ) Software Workflow

This workflow detects spots from a 3D image by using straightforward set of ImageJ components. It receives the Laplacian Radius and the Threshold  value s input.

02/25/2019 - 17:30
need a thumbnail ImageJ Built-in Macro Functions Software Collection

A set of ImageJ Built-in Macro Functions used to perform operations on the ImageJ platform.

02/25/2019 - 15:38
need a thumbnail Spot detection (ImageJ) Software Workflow

This workflow detects spots from a 2D image by using straightforward set of ImageJ components. It receives the Laplacian Radius and the Noise tolerance as input.

02/25/2019 - 15:24
need a thumbnail Thresholder (ImageJ) Software Collection 02/25/2019 - 14:53
need a thumbnail Filament Tracing (ImageJ) Software Workflow 02/26/2019 - 15:34
need a thumbnail FandPLimitTool Software Collection

Software for computing single molecule localization accuracies and resolution measures

The FandPLimitTool is a GUI based software module that allows users to calculate the limits to the accuracy with which parameters can be estimated from single molecule imaging data. The software supports calculation of limits for the 2D/3D location estimation problem and the 2D/3D distance-estimation/resolution problem.

02/23/2019 - 20:48
3D colocalisation Training Material

A user comes to the Facility: “I’ve got a set of 2 channels 3D images where objects are overlapping. I think the overlap might not be the same from object to object. I would like to quantify the physical overlap and get a map of quantifications”. Your mission: write the appropriate macro, knowing a user might always change her/his mind, and ask for more… Ready to take on the challenge ?

03/08/2019 - 17:32
need a thumbnail NVidia CUDA 9 Software 02/19/2019 - 16:43
need a thumbnail Holovibes Software Collection

Holovibes is a free software dedicated to the calculation of holograms in real-time. Input interferogram data can be grabbed from a digital camera or loaded from files recorded beforehand. Massive amounts of data can be handled robustly at high throughput, saved to disk, and visualized in real-time without any risk of frame dropping thanks to the use of several configurable input and output memory buffers.

02/19/2019 - 16:43