I’m not sure I understand what you are trying to do. Are you looking to change the syntax of the programming language so that you can type cos(…) instead of Cos[…]?
I strongly recommend you don’t do this.
You can usually create stuff like this using the Notations package. More information about that package is available in the documentation.
Have you tried TraditionalForm[Cos[a]]? You had better write your input in StandardForm as Cos[a], but then you can convert the input cell to TraditionalForm.