MIRU-profiler -- performs digital 24-loci MIRU-VNTR typing for Mycobacterium tuberculosis
Should you wish to run MIRU-profiler on Windows 10 please install bash-shell first:
https://www.windowscentral.com/how-install-bash-shell-command-line-windows-10
EMBOSS (version:6.6.0.0)
sudo apt install emboss
./MIRU-profiler [options] -i input_file.fasta
Provide a directory name followed by wild-card(*) in single quotes. Example:
./MIRU-profiler [options] -i 'input_dir/*'
-h = Prints this help text
-e = Define the acceptable variation (in bp) between amplicon size in sequence and reference MIRU table [Default: 5]
-i = Define input file or a directory of fasta files [Required]
-o = Set the output directory for the intermediate files [Default: OUTPUT]
-s = Set the directory for supporting files [Default: Supporting_files]