This is the central repo for the IALab software, including parsers of various microscopy experiments, into multidimensional and multichannel images, and core code for segmentation, measurement, export of results and display of images and results . Some example workflows are stored in the Examples directory.
As well as directly cloning the repo, installation as a MATLAB toolbox is available from this link: https://az.app.box.com/s/sth2742g6fu2i3ag1n1y1xi2ijd0da89
This shared folder also contains example datasets for analysis in IALab
MATLAB (tested on R2014b, R2017b)
Image Processing Toolbox Computer Vision System Toolbox Parallel Computing Toolbox (optional) Statistics Toolbox (for some functionality)
- Bio-formats library, http://www.openmicroscopy.org/site/products/bio-formats.
- imoverlay, v1.3 - Matlab file exchange.
- colorGradient: generate custom linear colormaps, v1.0 - Matlab file exchange.
- GUI Layout Toolbox, v2.3.1 - Matlab file exchange.
- Add Text To Image, v1.2 - Matlab file exchange.
- Multi ROI/Mask Editor, v1.0 - Matlab file exchange.
- SC - powerful image rendering, v1.10 - Matlab file exchange.
- JSONlab: a toolbox to encode/decode JSON files, v1.5 - Matlab file exchange.
- DIPUM Toolbox, v1.1.4, Gonzalez, R. C., Richard E. Woods, and Steven L. Eddins. "Digital Image Processing using Matlab." Gatesmark Publishing; 2nd edition (2009)