Facilitates the exploration of high-throughput 3C-based data. HiTC allows users to import and export ‘C’ data, to transform, normalize, annotate and visualize interaction maps. It proposes a powerful and extensible framework for visualizing and exploring high-throughput C data and is able to handle both 5C and Hi-C data and offers new functionalities such as standard import, data transformation and integrative visualization methods. The HiTC package is aimed at biologists interested in investigating their data and at biostatisticians involved in the development of new statistical methods which can be applied to C data.

Allows user to infer A/B compartments from Hi-C data. CscoreTool is a prediction method for A/B compartments that can work on high resolution for dataset. It carries out high-resolution, precise high and low-resolution compartment analyses at high and low sequencing depths with similar precision and requires little time and computer memory.