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. 2018 Feb 1;8:2190. doi: 10.1038/s41598-018-19655-w

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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A simplified schematic of methylation-sensitive restriction enzyme sequencing approach and the msgbsR pipeline. (A) An example of MRE-seq/msGBS using the restriction enzyme, MspI, which cleaves DNA at the recognition sequence C^CGG if the internal cytosine is methylated. However, MspI does not cut at the recognition site if both cytosines are methylated or the external cytosine is methylated. (B) The data analysis pipeline represented by a flowchart which highlights the names of the main functions in the msgbsR package.