Using jQuery Theme Roller with WordPress

I can make this work, but I believe I’m doing it the wrong way. I’d like to know the right way. You can tell I’m a beginner from my walk-through below, but this is how I work:

What I’ve done is:

Created the theme in Theme Roller and downloaded it.

Opened the zip folder and found the css, js and html files.

Put the theme folder from inside the downloaded css folder (“dark hive,” in this case) into my WordPress theme’s css folder.

Put the three files from the downloaded js folder into my WP theme’s js folder.

Taken the coding below the body tag from the downloaded index.html file and put it into my WP home page.

Taken the coding inside the head tags of the downloaded html page and put that in the WP header file.

That header coding had three jQuery-related links. Even though the relative paths were correct, those weren’t working. I changed those to full paths for my site to look something like this:

<link href="http://mywebsite.com/wp-content/themes/themename/js/jquery-collapse.jscss/dark-hive/jquery-ui-1.10.2.custom.css" rel="stylesheet">
<script src="href="http://mywebsite.com/wp-content/themes/themename/js/jquery-1.9.1.js"></script>
<script src="href="http://mywebsite.com/wp-content/themes/themename/js/jquery-ui-1.10.2.custom.js"></script>

And that worked. The Theme Roller elements worked on my home page.

However, it’s my understanding that I shouldn’t be adding a new jQuery page (not sure what the correct term is there) when WP already has jQuery installed.

Could someone tell me what hopefully brief (for your sake) steps I would take to switch this setup to run on WP’s jQuery and what files I should add or delete? If I need to add or delete code, please say where.

I see jQuery WordPress questions sprinkled a lot of different places on the web, and I’ve followed many instructions in trying to not add my own jQuery page, but when I delete the link to that page (middle link above) in my header, my jQuery elements always quit working. I think I need to be walked through all of this to accomplish it. Hopefully, this discussion will help someone else, too.

Thank you.