AUTHOR=Xing Yue , Li Xiao , Gao Xiang , Dong Qunfeng 

TITLE=MicroGMT: A Mutation Tracker for SARS-CoV-2 and Other Microbial Genome Sequences

JOURNAL=Frontiers in Microbiology

VOLUME=11

YEAR=2020

URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2020.01502

DOI=10.3389/fmicb.2020.01502

ISSN=1664-302X

ABSTRACT=<p>With the continued spread of SARS-CoV-2 virus around the world, researchers often need to quickly identify novel mutations in newly sequenced SARS-CoV-2 genomes for studying the molecular evolution and epidemiology of the virus. We have developed a Python package, MicroGMT, which takes either raw sequence reads or assembled genome sequences as input and compares against database sequences to identify and characterize indels and point mutations. Although our default setting is optimized for SARS-CoV-2 virus, the package can be also applied to any other microbial genomes. The software is freely available at Github URL <ext-link ext-link-type="uri" xlink:href="https://github.com/qunfengdong/MicroGMT" xmlns:xlink="http://www.w3.org/1999/xlink">https://github.com/qunfengdong/MicroGMT</ext-link>.</p>