HiCPotts: An R/Bioconductor package to identify significant interactions in chromosome conformation capture data and model sources of biases. (opens in new tab)

Motivation: Chromosome Conformation Capture methods, including Hi-C, micro-C or Capture-C, are used to map chromatin interactions genome-wide. Most of the existing computational methods do not account for sources of biases (such as DNA accessibility, GC content or TE content) in the data. Results: We previously developed ZipHiC, a Bayesian method based on a the hidden Markov random field (HMRF) model and the Approximate Bayesian Computation (ABC), that uses zero-inflated Poisson distribution ...