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artMAP: A user-friendly tool for mapping ethyl methanesulfonate-induced mutations in Arabidopsis

机译：ArtMap：用于在拟南芥中映射甲磺酸甲酯诱导的突变的用户友好的工具

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摘要

Mapping-by-sequencing is a rapid method for identifying both natural as well as induced variations in the genome. However, it requires extensive bioinformatics expertise along with the computational infrastructure to analyze the sequencing data and these requirements have limited its widespread adoption. In the current study, we develop an easy to use tool, artMAP, to discover ethyl methanesulfonate (EMS) induced mutations in the Arabidopsis genome. The artMAP pipeline consists of well-established tools including TrimGalore, BWA, BEDTools, SAMtools, and SnpEff which were integrated in a Docker container. artMAP provides a graphical user interface and can be run on a regular laptop and desktop, thereby limiting the bioinformatics expertise required. artMAP can process input sequencing files generated from single or paired-end sequencing. The results of the analysis are presented in interactive graphs which display the annotation details of each mutation. Due to its ease of use, artMAP makes the identification of EMS-induced mutations in Arabidopsis possible with only a few mouse click. The source code of artMAP is available on Github (https://github.com/RihaLab/artMAP).
机译：逐序列是一种快速方法，用于识别天然的基因组的诱导变化。然而，它需要广泛的生物信息学专业知识以及计算基础设施来分析测序数据，这些要求限制了其广泛的采用。在目前的研究中，我们开发了一种易于使用的工具，艺术图，以发现拟南芥基因组中的甲磺酸盐（EMS）诱导突变。 ArtMap管道由良好的工具组成，包括TrimGalore，BWA，Bedtools，SAMTOOLS和SNPEFF，它集成在Docker容器中。 ArtMap提供了一个图形用户界面，可以在常规笔记本电脑和桌面上运行，从而限制所需的生物信息学专业知识。 ArtMap可以处理从单个或配对结束排序生成的输入排序文件。分析结果以交互图呈现，显示每个突变的注释细节。由于其易用性，ArtMap仅通过少量鼠标点击识别Arabidopsis中的EMS诱导的突变。 Github上提供ArtMap的源代码（https://github.com/rihalab/artmap）。

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