SAMSON Blog – Page 5

A Smoother Way to Tell Molecular Stories: Using ‘Move Camera’ in SAMSON

When creating molecular presentations, it can be challenging to guide your audience’s visual focus across complex structures. Whether you are demonstrating a docking process or showing molecular assembly, static views often fall short. That’s where camera animations come in—more specifically,…

Quickly Identify Large Molecular Paths with NSL Filters

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When working with complex molecular systems, visual clutter and data overload can slow researchers down. Molecular modelers often need to isolate specific subsets of structures, such as conformational paths that involve many atoms, without manually examining each one. This is…

Share and Reproduce Molecular Pipelines with Embedded Python Scripts in SAMSON

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Keeping track of workflows in molecular modeling can be difficult, especially when switching between tools, colleagues, or machines. Have you ever had to send a list of packages to install, external scripts and readme files in an attempt to make…

Reduce Eye Fatigue During Molecular Modeling with Dark Mode in SAMSON

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Working with 3D molecular structures for extended periods can be highly engaging but also visually straining. If you’re modeling late into the evening or spending hours adjusting rendering parameters, chances are you’ve experienced some degree of eye fatigue. For users…

Reading molecules like sentences: the Sequence View in SAMSON

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Molecular modeling often requires handling complex structures like proteins, nucleic acids, or macromolecular assemblies composed of hundreds or thousands of atoms. Navigating and editing these structures without getting lost can quickly become frustrating. One of the most useful tools in…

Progressively Revealing Atoms: A Clearer Way to Build Molecular Animations

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When creating molecular animations to present simulations or structural analyses, clarity is often a challenge. Whether you’re building an educational visualization or prepping a presentation for collaborators, simply switching atoms on or off rarely provides the nuance needed to communicate…

Understanding visibility settings in SAMSON’s Property Models

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When working on complex molecular systems, clarity is key. Visualizing only the necessary elements makes it easier to analyze specific pathways, verify modeling outcomes, or share focused insights with peers. However, managing visibility in large structures can sometimes be confusing—especially…

How to Efficiently Select Render Presets in SAMSON with NSL

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When dealing with complex molecular systems, controlling visualization settings is vital to understanding structures, interactions, and dynamic behavior. In SAMSON, visual styles and display presets can be organized and fine-tuned using render preset nodes. But what if you have dozens—or…

Organizing Molecular Structures with Folders in SAMSON

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As molecular modeling projects grow in complexity, so does the need to keep structures, simulations, scripts, and datasets well-organized. With multiple molecules, different simulation conditions, and embedded metadata, managing a project in a streamlined way isn’t just convenient—it’s essential. If…

One Step Closer to Convergence: How to Set Up the FIRE Minimizer in SAMSON

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One of the more common frustrations in molecular modeling is sluggish geometry optimization. If you’ve ever waited through long minimization cycles or struggled with convergence during structural relaxation, you’re not alone. This is especially common during large-scale molecular motions –…