Yes - see the help document here:
Configuring Sequence Editor and User Interface Startup Options
The command and response will look something like this:
C:\Users\Public\Documents\National Instruments\TestStand 2016 (64-bit)\UserInter faces\Simple\CVI\Source Code\x64>TestExec /runEntryPoint "Single Pass" "C:\Users \Public\Documents\National Instruments\TestStand 2016 (64-bit)\Examples\Demos\Co mputer Motherboard Test\CVI\Computer Motherboard Test Sequence.seq" /outputToStd IO /quit C:\Users\Public\Documents\National Instruments\TestStand 2016 (64-bit)\UserInter faces\Simple\CVI\Source Code\x64>Execution 'Single Pass - Computer Motherboard T est Sequence.seq [4]' ended Status: Passed
Note that you'll need to take a little extra work to suppress any dialogs (like the log-in log out dialog).
It's also possible to send custom commands if you need to - I wrote a few examples of this a while back:
Another option is to write a basic command line app that doesn't use the TestStand UI Controls, and just use the TestStand API to call Engine.NewExecution().
Hope this helps!
Trent