Awesome

histoCAT++

Software developed by Raúl Catena in the bodenmiller laboratory to perform IMC analysis, computer vision on IMC images, cell segementation, mask learning, cell data dimensionality reduction, clustering, plotting, classification with standar machine learning, registration, multimodal image stitching, 3D reconstruction, exporting to different formats, and 3D data analysis.

Dependencies

OpenCV must be installed in the standard path (/usr/local) to run the project with XCode. No dependencies to use the binary it contains copies of the libraries. R, with ggplot2 and RColorBrewer packages for the plotting. Let R be installed in the standar directory as /Library/Frameworks/R.framework open the R console and execute install.packages("ggplot2"); install.packages("RColorBrewer");

References

Raul Catena et al. Journal of Pathology, February 2018.