Introduction

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Introduction#

Pattools is an advanced toolkit designed for the comprehensive analysis of Bisulfite sequencing (BS-Seq) data. This tool enables researchers to seamlessly evaluate a variety of DNA methylation metircs using BS-seq data and to implement algorithms developed by other researchers without the need for data format conversion.

The PAT format was first proposed in wgbstools (Github) [Loyfer et al., 2024]. This format is compressed and indexed, providing comprehensive information about methylation patterns while excluding the subjects’ private DNA sequence data. Therefore, the pat format can effectively facilitate the transmission and sharing of methylation data.

Therefore, we selected the PAT format as the central hub for BS-seq data and developed pattools to facilitate the analysis of PAT format data. Pattools currently offers the following functionalities:

  • Multiple methylation deconvolution algorithms

  • Methylation beta value analysis

  • Methylation entropy analysis

  • Methylation vector analysis

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Cite Us#

Cheng et al. (2024). Novel diagnosis and therapeutic strategies for small cell lung cancer based on aberrant methylation in lung cancer subtypes. (journal not determined)

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