BatMeth2: DNA Methylation Data Analysis

_images/BatMeth2-pipeline.jpg

BatMeth2 is an easy-to-use, auto-run package for DNA methylation analyses. In order to complete the DNA methylation data analysis more conveniently, we packaged all the functions to complete an easy-to-use, auto-run package for DNA methylation analysis. During the execution of BatMeth2 Tool, an html report is generated about statistics of the sample.

Installation

The functions you can use BatMeth2 to do:

Contents

While developing BatMeth2, we continuously strive to create software that fulfills the following criteria:

  • raw fastq reads quality control and efficiently align bisulfite sequencing data

  • calculate DNA methylation level based on sorted BAM file for single base or chromosome region and genes.

  • new methlation mbw format with index can calculate DNA methylation level quickly.

  • enable customized down-stream analyses, espacially with visulization

  • generation of highly customizable images (change colours, size, labels, file format, etc.)

Citation

Please cite BatMeth2 as follows:

Zhou Q, Lim J-Q, Sung W-K, Li G: An integrated package for bisulfite DNA methylation data analysis with Indel-sensitive mapping. BMC Bioinformatics 2019, 20:47. https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2593-4

Tip

For feature requests or bug reports please open an issue on github.