Have you ever needed to visually emphasize certain structures or processes in your molecular models, but struggled to find a clear and impactful way to do it? The Pulse animation in SAMSON can provide a solution by enabling nodes to appear and disappear progressively. This dynamic highlighting technique can effectively draw attention to specific features and make presentations or analyses more engaging.
Why Use the Pulse Animation?
The Pulse animation is particularly useful when working with nodes that have a transparency attribute, such as structural models, visual models, meshes, and labels. By applying this animation, you can:
- Visually emphasize molecular changes or processes by alternating transparency levels.
- Enhance the clarity of your scientific presentations or training materials.
- Create aesthetically pleasing animations that make complex molecular data easier to understand.
How Does the Pulse Animation Work?
The Pulse animation is based on 5 keyframes, which define how nodes transition between being transparent and opaque:
- Keyframes 1 to 2: Nodes are completely transparent.
- Keyframes 2 to 3: Nodes progressively appear by decreasing transparency.
- Keyframe 3: Nodes are fully opaque (no transparency).
- Keyframes 3 to 4: Nodes progressively disappear by increasing transparency.
- Keyframes 4 to 5: Nodes return to full transparency.
You can adjust the timing of these keyframes to customize the behavior of the animation based on your specific requirements.
Step-by-Step Guide to Adding the Pulse Animation
Here’s how you can easily apply the Pulse animation:
- Select the nodes that you want to apply the animation to.
- Go to the Animation panel of the Animator in SAMSON.
- Double-click on the Pulse animation to add it to your selected nodes.
You can also modify how the animation progresses by changing the Easing curve in the Inspector to control parameter interpolation.

Visual Feedback with the Pulse Animation
One great feature of this animation is the visual feedback it offers. By progressively making nodes transparent and opaque, observers can focus on the changes specific to molecular dynamics or the functional importance of certain areas in the model. This can be particularly valuable when analyzing complex phenomena or showcasing your results to an audience.
Below is an example GIF illustrating how the Pulse animation generates this effect:

Learn More
The Pulse animation is just one of many animation tools offered by SAMSON to enhance the way molecular models are presented and understood. You can explore the detailed documentation to learn more about its application and customization options.
SAMSON and all SAMSON Extensions are free for non-commercial use. You can get SAMSON today at https://www.samson-connect.net.
