【工具】PCBS一个用于快速且准确分析亚硫酸氢盐测序数据的 R 软件包

介绍

全基因组亚硫酸氢盐测序是一种强大的工具，可用于对全基因组范围内的染色质甲基化进行分析，但全基因组亚硫酸氢盐数据的分析速度慢、灵活性差，而且往往不够准确。

我们开发了 PCBS（主成分生物亚硫酸氢盐），这是一个计算效率高的 R 软件包，用于全基因组亚硫酸氢盐测序分析，与当前的工具相比，它在准确性及灵活性方面表现出色。PCBS 能够识别差异甲基化位点、差异甲基化区域，并提供了新颖的功能，使得甲基化分析更具针对性。PCBS 使用的计算资源极少；在小鼠模型中，完整的测序流程可以在几分钟内在一个本地 RStudio 实例中运行。

Motivation
Whole-genome bisulfite sequencing is a powerful tool for analyzing chromatin methylation genome-wide, but analysis of whole-genome bisulfite data is slow, inflexible, and often inaccurate.

Results
We developed PCBS (Principal Component BiSulfite), a computationally efficient R package for Whole Genome Bisulfite Sequencing analysis that demonstrates remarkable accuracy and flexibility compared to current tools. PCBS identifies differentially methylated loci, differentially methylated regions, and offers novel functionality that allows for more targeted methylation analyses. PCBS uses minimal computational resources; a complete pipeline in mouse can run on a local RStudio instance in a matter of minutes.

代码

https://github.com/katlande/PCBS

案例

https://katlande.github.io/PCBS/articles/Differential_Methylation.html

参考

• PCBS: an R package for fast and accurate analysis of bisulfite sequencing data
• https://github.com/katlande/PCBS