You can use one of the embedded scripts loaded by JsFileLink when you set ScriptType enum
There are 4 options that you can set
When you set Custom you should set FileName property. This property accepts a string which represents the virtual path to your custom js file. There is no specific requirement where to put this file, so you can create a new folder in you root called "MyScripts" and put your js files there. There make a reference to these files by using JsFileLink control.
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