This repository contains the source code of the Phenotiki Analysis Software for BisQue. Our cloud solution is structured as a suite of three web-based applications:
- PhidiasAnnotate: permits manual annotation of images to delineate plant regions;
- PhidiasModel: offers automated optimization of image analysis algorithm parameters, via a grid search on a training dataset of images and corresponding plant annotations (obtained for example with PhidiasAnnotate);
- PhidiasAnalyze: permits batch analysis of a dataset of time-lapse images of rosette plants and offers the possibility to visualize and export results.
The modules can be accessed at http://bisque.iplantcollaborative.org after signing in with proper user credentials.