Yes, our mobile SDK will not interfere with your own push notifications not managed by Beemray. However, there are a few implementation considerations depending on the platform.
In iOS, the "persistent notifications" feature is not compatible with your own push notifications. Therefore, you should disable this setting if you plan to use push notifications other than Beemray ones.
You can normally register for push notifications from your app using the Instance ID API. Older registering methods are not supported.
If you want to use Parse.com service for push notifications, it is compatible with Beemray SDK (as of version 1.10.3 of Parse) provided that you configure Parse to use Beemray's sender ID:
839567552324. The line you have to add to your app's
<meta-data android:name="com.parse.push.gcm_sender_id" android:value="id:839567552324" />