zend studio 13.6 make .htaccess and .zfproject.xml appear

In the PHP Explorer window, you have on the top-right edge a triangle (showing downside). Click on it and choose "Filters...". Then uncheck ".* resources" and press "OK". Now the (unix)hidden files in are showing in your Zend Studio PHP Explorer.

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In version 13.6

Project Explorer -> ▽ -> Customize View... -> Filters (tab)