epihet: Determining Epigenetic Heterogeneity from Bisulfite Sequencing Data

epihet is an R-package that calculates the epigenetic heterogeneity between cancer cells and/or normal cells. The functions establish a pipeline that take in bisulfite sequencing data from multiple samples and use the data to track similarities and differences in epipolymorphism,proportion of discordantly methylated sequencing reads (PDR),and Shannon entropy values at epialleles that are shared between the samples.epihet can be used to perform analysis on the data by creating pheatmaps, box plots, PCA plots, and t-SNE plots. MA plots can also be created by calculating the differential heterogeneity of the samples. And we construct co-epihet network and perform network analysis.

Package details

AuthorXiaowen Chen [aut, cre], Haitham Ashoor [aut], Ryan Musich [aut], Mingsheng Zhang [aut], Jiahui Wang [aut], Sheng Li [aut]
Bioconductor views DNAMethylation Epigenetics MethylSeq Sequencing Software
MaintainerXiaowen Chen <[email protected]>
URL https://github.com/TheJacksonLaboratory/epihet
Package repositoryView on Bioconductor
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epihet documentation built on Oct. 31, 2019, 8:54 a.m.