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

ABSTRACT: 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

SUBMITTER: Javorka P 

PROVIDER: S-EPMC6560221 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature