OK, matlab for windows has several for executing windows commands, the simplest to discuss is system(string) This will pass the contents of the string to windows as a command to execute. The string could look like 'C:\cygwin\bin\bash --login -c custom-command' which will log into a cygwin bash shell to excecute custom-command and then exit. So its perfectly possible. Experiment a little; you will find that it does in fact work.
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