Hi,
You can use the program PuTTY that allows you to connect securely to your linux server from your windows machine. Once you are connected to the server, you can send commands to it.
To use putty:-
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1.Download Putty (putty.exe):
http://www.chiark.greenend.org.uk/~sgtatham/putty/download.html
2.Launch Putty: Double-click on the file you just downloaded to launch the PuTTY Configuration window.
3.Enter 'yourdomain.com' in the field for 'Host Name (or IP address)' and select 'SSH' for the 'Protocol'. Then simply press the 'Open' button.
4.Accept host key If this is the first time you have connected to this server, a window will pop up that asks you about the server's host key being cached in the registry.
5.Enter username and password After accepting the host key, the regular PuTTY terminal window will pop up.
Regards,
Jave