BatMeth2: DNA Methylation Data Analysis


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.


The functions you can use BatMeth2 to do:


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.)


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.


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