Can I use javascript, php and MySql in any plan?

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Yes. Regardless of the plan you choose for your droplet, you get a VPS with full root access so you can install whatever you want on it. Check out this tutorial for instructions on how to install Apache, PHP, and MySQL on an Ubuntu 14.04 droplet:

Once you’re done, you can use a SFTP client to upload your website to /var/www/html.

by Pablo Carranza
This article will teach you how to use Filezilla to transfer and manage files securely on your VPS.