You should be able to accomplish what you want in Bongo.
The basic flow is
- Select the object
- Turn on control points
- Press the animate button
- Move the timeline to the desired keyframe
- Move the control point to the desired position
This will make a morphing keyframe. As you move the scrub the timeline you will see the control point change position. You’ll have to do that for each each control point you intend to move which may be a little laborious. You may also want to clean up the mesh a bit before animating. You cannot change the number of control points over the course of the animation.
Here’s a tutorial you may find helpful.