OneAngstrom – Page 108

Holding That Key Frame: How to Pause Molecular Animations in SAMSON

When preparing molecular animations in SAMSON, timing is everything. Whether you’re building a smooth protein docking sequence or visualizing a complex reaction mechanism, it’s often helpful to draw attention to a particular moment. This is where the Pause animation effect…

Visualizing Ligand Motion with Pathlines in SAMSON

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Tracking the movement of specific molecular components across a simulation is a common task in molecular modeling and simulations. One particularly useful metric is the motion of the center of mass (COM) of a group of atoms — for instance,…

Avoiding Common Pitfalls When Choosing Force Fields for Coarse-Grained Simulations

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When preparing a coarse-grained (CG) system for molecular dynamics simulations, one of the most overlooked yet essential steps is setting the correct force field. In SAMSON’s GROMACS Wizard, the careful selection of the right coarse-grained force field can make or…

How to Quickly Filter Render Presets in SAMSON with NSL

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When working on complex molecular models, the scene can easily become cluttered with visual presets. Whether it’s different representations for various parts of a biomolecule, or custom shaders applied during visualization iterations, keeping track of render presets can slow you…

Visualizing Defects in Diamond Crystals with SAMSON

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In real-life materials, perfection is rare. Crystalline structures, even of highly ordered materials like diamond, often contain imperfections known as defects. For molecular modelers and material scientists, being able to visualize and manipulate such defects is essential — both to…

Keeping Your Molecular Projects Organized with Embedded Folders in SAMSON

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When working on complex molecular modeling projects, keeping track of your files can quickly become a challenge. Structure files, Python scripts, images, data, analyses—all scattered across different directories. If you’ve found yourself emailing compressed project folders or trying to remember…

Need a Previous Version of SAMSON? Here’s How to Install It

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If you’re a molecular modeler relying on specific SAMSON Extensions, computational workflows, or research reproducibility, you might find yourself needing to install an older version of SAMSON — the integrative molecular design platform. Developers often update Extensions for the latest…

Integrate Your Workflow: Using Custom Apps in SAMSON

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Molecular modelers often find themselves juggling several pieces of software to complete a workflow—from docking and energy minimization to structural analysis. This switching can disrupt focus, increase the potential for user error, and reduce productivity. This is where SAMSON Apps…

Making Sense of Molecular Visibility in SAMSON’s NSL

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Molecular modelers working with complex multi-component systems often need to control what’s shown and what’s hidden to focus on specific molecular features. But when your project grows, keeping track of visibility state across all components can become tedious and error-prone.…

Mastering Camera Motions: Follow Your Molecules with SAMSON

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When telling the story of a molecular system—whether for scientific communication, education, or personal insight—how you move the camera is often just as important as what you’re showing. If you’ve ever felt limited by static views or cumbersome setups when…