I got Wordpress hosting thru go daddy but want to go with a Joomla template will this cause any issues ?
If it is managed WP hosting, Joomla won't work on it. However, it if you have cPanel hosting you can install joomla on that platform. The managed WP platform is tuned only to WordPress.
Essentially, you will have to cancel the managed wp hosting and add cPanel hosting. I have recently switched to the business cpanel platform and its working quite well for me!
Hope this helps,