Gavin-Yinld/csmFinder: Find putative cell-subset specific methylation (pCSM) loci in single-cell methylomes or bulk methylomes
This package is used for identifying pCSM loci from methylomes generated by single-cells or bulk tissues. For single-cell methylomes, a beta mixture model is used for divide the cells into two subsets with hypo and hyper-methylation states in candidate CSM regions. For regular datasets generated from bulk tissue or sorted cell populations, a Nonparametric Bayesian clustering is used to group the sequencing reads into hypo and hyper-methylated subsets, both of the two algorithms identify the 4-CpG segments with biplolar methylation patterns across two subsets as the pCSM loci.
Getting started
Browse package contents
Package details |
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| Author | Liduo Yin, Yanting Luo, Xiguang Xu, Shiyu Wen, Xiaowei Wu, Xuemei Lu* and Hehuang Xie* |
| Maintainer | The package maintainer <yinliduo@big.ac.cn> |
| License | GPL-2 |
| Version | 0.1.0 |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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