In molecular modeling, effectively visualizing structures and their dynamics often poses challenges. For instance, how do you make specific structural features appear and disappear seamlessly to highlight your insights or findings during presentations or animations? This is where the Pulse animation in SAMSON can help streamline your workflow.
The Pulse animation allows molecular modelers to progressively bring selected nodes (like structural models, visual models, meshes, or labels) into view and then have them fade away. Its strength lies in its ability to create visually appealing and clear transitions by leveraging the transparency attribute of nodes, ensuring your presentations or analyses are smooth and impactful.
How Pulse Animation Works
The Pulse animation is designed to make nodes appear and disappear progressively, operating through five keyframes:
- Keyframe 1–2: Nodes are fully transparent.
- Keyframe 2–3: Transparency decreases as nodes progressively appear.
- Keyframe 3: Nodes reach full opacity (no transparency).
- Keyframe 3–4: Transparency increases as nodes progressively disappear.
- Keyframe 4–5: Nodes return to being fully transparent.
By manually adjusting the keyframes, you can fine-tune the timing of the animation to fit your needs, adapting it for specific nodes and scenarios in the model.
Enhancing Animations: Easing Curves
Another flexible feature of Pulse is its compatibility with the Easing curve. Easing curves allow you to define how quickly or slowly nodes transition between appearances and disappearances. This can add intricacy and finesse to your animations, making them more engaging for audiences.
Getting Started with Pulse
To apply the Pulse animation:
- Select the nodes you want to make progressively visible and invisible.
- Open the Animation panel in the Animator.
- Double-click the Pulse animation effect.
- Tweak the keyframes as needed to perfectly align with your desired timeline.

Why Pulse Animation is a Game-Changer
Using Pulse, you can highlight core areas of your molecular models without clutter or distraction, bringing clarity to presentations and making analyses more transparent. It simplifies how you control the visibility of intricate structures, providing an elegant solution to focus your viewers’ attention exactly where you need it.
Learn more about Pulse animation and its properties in the full documentation here: https://documentation.samson-connect.net/users/latest/animations/pulse/.
SAMSON and all SAMSON Extensions are free for non-commercial use. You can get SAMSON at https://www.samson-connect.net.
