A cool place to store your Hi-C

Genomic interval operations on Pandas DataFrames

The tools for your .cool's

Extract 3D contacts (.pairs) from sequencing alignments

A modular Hi-C mapping pipeline

A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

Chromosome polymer simulations and in silico capture experiments

Python bindings to UCSC BigWig and BigBed library

snakemake pipeline for Hi-C post-processing

Cooler demo using a Jupyter notebook Binder

A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.