Image Title Category Type Description Updated
Recording simple macros for batch processing Training Material

ImageJ, for those with GUI knowledge but without scripting knowledge, workflow: MIP, change LUT, merge channels

04/08/2019 - 13:36
Batch ImageJ macro Training Material

ImageJ, for those with GUI knowledge but without scripting knowledge, workflow: change LUT, make montage

04/08/2019 - 13:34
Tumor Blood Vessels: 3D Tubular Network Analysis Training Material

In this session, we will implement a simple ImageJ macro to segment and analyze the blood vessel network of a subcutaneous tumor. The analysis is fully performed in 3D, and possible strategies to extract statistics of the network geometry and interactively visualize the results are also discussed and implemented.

04/08/2019 - 13:30
Macro Programming in ImageJ Training Material

Aim: Students acquire ImageJ macro programming technique to ease
their work loads with image processing / analysis.

04/08/2019 - 13:24
Hands-on exercises for learning Imaris Training Material

Imaris, Visualization, spots segmentation, surfaces segmentation, colocalization, spots tracking, Batch, plotting graphs with Vantage.

04/08/2019 - 13:20
Building a workflow with CellProfiler Training Material

CellProfiler, Counting PLA dots, track swelling organoids

04/08/2019 - 13:16
KNIME Workflow Training Material

KNIME workflow construction hands-on, example workflows in the linked materials

04/08/2019 - 13:13
ICY Protocols and Scripts Training Material

ICY workflow construction hands-on. Slides

04/08/2019 - 13:11
Introduction to ImarisXT using MATLAB Training Material

Imaris scripting using Matlab (ImarisXT API trining). Slides, protocols, some scripts. Hands-on

04/08/2019 - 13:07
ImageJ2 Ops Scripting Training Material

ImageJ2 API training. Beaker notebooks, with backends under dot-folder. Hands-on

04/08/2019 - 13:04
Developing for ImageJ and Friends Training Material

ImageJ, example IDE setup for developing plugin. Lecture and demonstration

04/08/2019 - 13:00
Big Data & 3D Visualization Training Material

Lecture Slides

04/08/2019 - 12:43
Deconstructing co-localisation workflows: from co-expression assessment to super-resolved co-distribution analysis Training Material

Deconstructing co-localisation workflows: from co-expression assessment to super-resolved co-distribution analysis

Lecture slides

04/08/2019 - 12:40
CPA CellProfiler Analyst CPA Software Collection

CellProfiler Analyst (CPA) allows interactive exploration and analysis of data, particularly from high-throughput, image-based experiments. Included is a supervised machine learning system which can be trained to recognize complicated and subtle phenotypes, for automatic scoring of millions of cells. CPA provides tools for exploring and analyzing multidimensional data, particularly data from high-throughput, image-based experiments analyzed by its companion image analysis software, CellProfiler.

04/14/2019 - 16:10
Using machine learning to perform image quality control Training Material

CellProfiler and CellProfiler Analyst, no programming involved. A component for quality control of images. Object "to measure aspects of image quality with CellProfiler and how to use the machine learning tools in CPA to create a robust rules to distinguish low-quality images "

04/08/2019 - 12:41
CellProfiler Tutorial: pixel-based classification Training Material

CellProfler & ilastik, no programming involved.

04/08/2019 - 12:23
Introduction to Image Segmentation Training Material

ImageJ, GUI training for beginners. segmentation intro, thresholding, morphological segmentation

04/08/2019 - 12:20
Introduction to ImageJ: basic operations Training Material

ImageJ, GUI training for beginners.

04/08/2019 - 12:17
Restoration of BioImage by Digital Filters Training Material

Lecture on digital filters for bio image analysis

04/08/2019 - 12:14
SR-Tesseler Hands-On Training Material

SR-Tesseler, a tool for analyzing single molecule localization data. Hands-On, with slides, sample data and installer. Windows only

04/08/2019 - 12:11