MGEScan Software Process

• HMMER: hmmsearch 3.1b1 http://hmmer.org/
• EMBOSS: matcher, transeq http://emboss.sourceforge.net/, http://www.ebi.ac.uk/Tools/emboss/
• GAME: Choi, Jeong-Hyeon, Hwan-Gue Cho, and Sun Kim. “GAME: a simple and efficient whole genome alignment method using maximal exact match filtering.” Computational biology and chemistry 29.3 (2005): 244-253.
• Tandem Repeats Finder: https://tandem.bu.edu/trf/trf.html
• MGEScan: https://github.com/mgescan/mgescan