Walking Backward Through Molecular Trajectories in SAMSON

Molecular modeling often involves exploring how molecules transition from one conformation to another. These trajectories can contain vital insights about the stability and behavior of biological systems, materials, or reactions. But what happens when you want to focus not only…

Quickly Review Molecular Simulations in Reverse Using SAMSON

When working with molecular simulations, understanding a system’s behavior often requires going back and forth between different conformations or timepoints. Whether you’re reviewing docking animations, conformational transitions, or reaction paths, having precise control over the direction of playback can make…

Quickly Filter Conformations by Atom Count in SAMSON

When working with molecular systems in SAMSON, researchers often deal with complex models containing numerous conformations. A common challenge during analysis is identifying conformations based on specific structural features—such as the number of atoms. For instance, in simulations involving conformational…

Working with Visibility Flags for Lights in SAMSON

Managing complex molecular scenes in SAMSON can quickly become challenging when multiple lights are added for visualization. Lighting plays a crucial role in highlighting structural details, but keeping track of what’s visible — especially when debugging rendering settings — can…

A Quick Way to Build Protein Transition Paths Without Simulations

Researchers often need to visualize or quantify conformational transitions in proteins. Whether you’re modeling domain movements, setting up umbrella sampling, or preparing steered dynamics, having a continuous path between two experimentally determined structures can save you time—and avoid launching time-consuming…

Running GROMACS Simulations in the Cloud, Without the Headaches

Setting up and running molecular dynamics (MD) simulations can be time-consuming and computationally expensive, especially for large systems or long simulations. Many modelers face hardware limitations on their local machines and end up spending hours managing dependencies or queue systems…