Molecular modelers often create presentations to convey the structure and function of molecules. But when complex systems are revealed all at once, audiences can easily become overwhelmed and miss key details. That’s where animation – specifically, progressive visibility – can make a big difference. SAMSON, the integrative platform for molecular design, provides a helpful tool called the Appear animation that lets objects gently fade into view.
Progressively revealing structures can enhance understanding and keep attention focused. It’s especially useful for educators, researchers presenting to interdisciplinary teams, and anyone preparing scientific animations. Let’s break down how to use the Appear effect in SAMSON and understand what kinds of nodes you can apply it to.
What Does the Appear Animation Do?
The Appear animation in SAMSON allows selected nodes to slowly become visible over a specified timeframe. This is achieved by modifying the transparency of the object during the animation – crucial when working with visual or structural models that have this attribute. Instead of instantly popping into view, objects fade in, making for a smoother, less jarring experience.
This animation applies to:
- Structural models
- Visual models
- Meshes
- Labels
Note: Individual atoms and bonds do not have a transparency attribute. If you want them to fade in, apply the animation to the entire structural model they belong to.
How Do You Add It?
To apply the Appear animation:
- Select the nodes you want to fade in.
- Open the Animation panel in the Animator.
- Double-click on Appear in the list of animation effects.
The Appear animation consists of four keyframes:
- Keyframes 1–2: Node is fully transparent (invisible)
- Keyframes 2–3: Node progressively becomes visible
- Keyframes 3–4: Node is fully opaque
You can fine-tune the timing by moving the keyframes to control when and how quickly the fade-in occurs. You can also adjust the Easing curve to influence the interpolation – for example, whether the fade-in accelerates or decelerates over time.
Visual Example
The following animation shows a structural model fading into view using the Appear effect. Notice how the gradual transition makes it easier to follow what’s being introduced, reducing visual overload:
Animations like this can be layered and timed to construct compelling molecular demonstrations. For instance, you could first fade in a molecular surface, then label specific atoms, and use Flash or Pulse effects to highlight important regions.
If part of your storytelling involves hiding and showing molecular elements in sequence, combining Appear with Disappear or Show can streamline your workflow.
Learn more about the Appear animation and related features in the official documentation at https://documentation.samson-connect.net/users/latest/animations/appear/.
SAMSON and all SAMSON Extensions are free for non-commercial use. To get SAMSON, visit https://www.samson-connect.net.