Author: OneAngstrom

When visualizing molecular dynamics or structural rearrangements, it’s easy to lose track of the most important regions. A common frustration among molecular modelers is trying to follow specific atoms or domains while letting the surrounding system move — without endlessly…

If you’ve ever recorded molecular animations for presentations or publications, you’ve probably wrestled with getting that perfect, meaningful rotation of your molecular system. It’s easy to spend too much time adjusting camera angles manually, only to end up with a…

When working on complex molecular visualizations, clarity matters. Whether you’re analyzing large biomolecular systems or creating compelling visual outputs for presentations or publications, the choice of color can dramatically impact how easily your audience interprets molecular structures. One of the…

Energy minimization is a crucial preparatory step in molecular simulations, especially before launching longer production runs such as molecular dynamics (MD). A poorly minimized system may result in unstable simulations, wasted computational resources, and misleading scientific conclusions. Yet many modelers…

As a molecular modeler, you often juggle multiple structures, simulations, and scripts. It’s easy to lose track of what’s where—especially when your work involves complex molecular assemblies. That’s where SAMSON’s Document view comes in. Designed to manage your entire project…

One of the crucial but often overlooked steps in molecular simulations with GROMACS is deciding which water molecules to include and which to remove from your system. While it might be tempting to wipe them all and let GROMACS solvate…

One common pain point in molecular modeling is the need to automate repetitive or complex tasks—whether it’s transforming molecular structures, computing properties, or creating simple graphical interfaces for custom workflows. Writing Python scripts can make this process much easier, but…

Creating high-quality molecular visualizations can often feel like a time-consuming and repetitive process. Whether you’re prepping figures for a publication or crafting an animation for a presentation, tweaking rendering settings and applying consistent visuals across structures can quickly become a…

When preparing molecular presentations or educational materials, you’ll likely encounter moments when you want specific components of your model to gradually disappear—either to focus attention elsewhere or to visually communicate molecular dynamics. The Disappear animation in SAMSON solves this by…