As Jordan already said you have to post back the javascript variable to your server before the server can handle the value. To do this you can either program a javascript function that submits a form - or you can use ajax / jquery. jQuery.post
Maybe the most easiest approach for you is something like this
function myJavascriptFunction() {
var javascriptVariable = "John";
window.location.href = "myphpfile.php?name=" + javascriptVariable;
}
On your myphpfile.php you can use $_GET['name']
after your javascript was executed.
Regards