An Efficient and Deterministic Method for Identifying Topological Domains in Genomes

The 'TopDom' method identifies topological domains in genomes from Hi-C sequence data (Shin et al., 2016 ). The authors published an implementation of their method as an R script (two different versions; also available in this package). This package originates from those original 'TopDom' R scripts and provides help pages adopted from the original 'TopDom' PDF documentation. It also provides a small number of bug fixes to the original code.


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install.packages("TopDom")

0.10.1 by Henrik Bengtsson, a month ago


https://github.com/HenrikBengtsson/TopDom


Report a bug at https://github.com/HenrikBengtsson/TopDom/issues


Browse source code at https://github.com/cran/TopDom


Authors: Henrik Bengtsson [aut, cre, cph] , Hanjun Shin [aut, ctr, cph] , Harris Lazaris [ctr, cph] (PhD Student , NYU) , Gangqing Hu [ctr, cph] (Staff Scientist , NIH) , Xianghong Zhou [ctr]


Documentation:   PDF Manual  


GPL license


Imports matrixStats, grid, ggplot2, reshape2, tibble

Suggests diffobj


See at CRAN