The affiliate manager plugin has built in integration with WooCommerce so you don’t need to do anything special.
Simply activate these two plugins on your WordPress site and do the basic setup configuration. After that, you will be ready to start accepting affiliate registration on you site.
Your affiliates will be able to send traffic to your WooCommerce store and get rewarded for it when a customer (referred by the affiliate) purchase a product.
When you receive orders, the plugin will award commission (see example below):
Please post your question on the forum if you face any issue setting up WooCommerce with the affiliates manager plugin.