A JAVASCRIPT check box OBJECT Now that we can link JavaScript objects to HTML controls, let's look at a more complex task: using JavaScript to make HTML controls easier to use. For this, let us ...

Always test your pages using Google’s own tools and third-party resources to view the rendered HTML to make sure all your content is showing up.

So if you want your links to be found, be safe and put them in standard html format. But if you don't want your links to be found, putting them in JavaScript or Flash won't guarantee that.