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TopDom  

An Efficient and Deterministic Method for Identifying Topological Domains in Genomes
View on CRAN: Click here


Download and install TopDom package within the R console
Install from CRAN:
install.packages("TopDom")

Install from Github:
library("remotes")
install_github("cran/TopDom")

Install by package version:
library("remotes")
install_version("TopDom", "0.10.1")



Attach the package and use:
library("TopDom")
Maintained by
Henrik Bengtsson
[Scholar Profile | Author Map]
First Published: 2021-05-06
Latest Update: 2021-05-06
Description:
The 'TopDom' method identifies topological domains in genomes from Hi-C sequence data (Shin et al., 2016 <doi:10.1093/nar/gkv1505>).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.
How to cite:
Henrik Bengtsson (2021). TopDom: An Efficient and Deterministic Method for Identifying Topological Domains in Genomes. R package version 0.10.1, https://cran.r-project.org/web/packages/TopDom. Accessed 13 Apr. 2025.
Previous versions and publish date:
No previous versions
Other packages that cited TopDom R package
View TopDom citation profile
Other R packages that TopDom depends, imports, suggests or enhances
Complete documentation for TopDom
Functions, R codes and Examples using the TopDom R package
Some associated functions: TopDom-data . TopDom . countsPerRegion . ggCountHeatmap . ggDomain . ggDomainLabel . legacy . overlapScores . readHiC . stop_if_not . subsetByRegion . 
Some associated R codes: TopDom.R . TopDomData.R . TopDom_0.0.1.R . TopDom_0.0.2.R . countsPerRegion.R . exdata.R . ggCountHeatmap.R . legacy.R . overlapScores.R . readHiC.R . subsetByRegion.R . utils.R .  Full TopDom package functions and examples
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