Hi-C-LSTM is a framework to form Hi-C representations that are useful for tasks such as element identification and in-silico modification.

3D chromatin modeler using 4C-seq data

HiCBricks offers user-friendly and efficient solutions for handling large high-resolution Hi-C datasets. The package provides a R/Bioconductor framework with the bricks to build more complex data analysis pipelines and algorithms.

InferLoop: leveraging single-cell chromatin accessibility for the signal of chromatin loop

Chromatin Landscape Exploration, Analysis, and Research Tools

HiSIF: Genome-wide chromatin interactions identify characteristic promoter-distal loops

Code used to plot the figures in "Extensive folding variability between homologous chromosomes in mammalian cells"