external link: https://www.bitbucket.org/chicagoTeam/chicago ; https://bioconductor.org/packages/devel/bioc/html/Chicago.html
developed by Jonathan Cairns, Paula Freire-Pritchett, Steven Wingett, Valeriya Malysheva, Helen Ray-Jones, Monica Della Rosa and Mikhail Spivakov
CHiCAGO is a statistical pipeline for calling significant chromosomal interactions in Capture Hi-C data. It incorporates a two-component background model along with bespoke normalisation and multiple testing correction techniques.
Cairns J, Freire-Pritchett P, Wingett SW, Varnai C, Dimond A, Plagnol V, Zerbino D, Schoenfelder S, Javierre B-M, Osborne C, Fraser P and Spivakov M. CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data. 2016. Genome Biology, 17:127.