What you get from cocoonjs is the xcode project.
First you need to create the app in the member-center -> certificated & identities -> ios app -> identifiers.
Add your game and the corresponding bundle name (com.xyz.abc ...).
Next up create a distribution profile for your app -> certificates -> add -> choose appstore or adhoc.
Go to iTunes Connect and setup your App Record by adding a new App.
Once you got that open up xcode.
Adjust the Build-Setting to your need and add neccesary asset files (icons, startup image).
Go to Product -> Archive. Then validate and then publish to appstore (something like that).
done. Wait for the review ;o)