Potential of Mean Force (PMF) analysis, often seen as a pivotal task in molecular simulations, has long been the cornerstone for understanding reaction processes and free energy changes along reaction coordinates. Yet, for many molecular modelers, turning umbrella sampling data…

For molecular modelers working with Python-based workflows, managing Python packages within an integrated environment can often be challenging. SAMSON, the integrative molecular design platform, provides an elegant solution to this problem with its built-in Python Package Manager. In this guide,…

For molecular modelers, comparing protein sequences and structures often feels like an intricate puzzle. Whether it’s identifying conserved residues or superimposing protein models for functional insights, achieving accurate alignments requires precision and the right tools. If you’ve ever struggled with…

For molecular modelers, an intuitive and well-structured interface can make the difference between hours of frustration and smooth, productive workflows. If you’re working with SAMSON, understanding how to navigate its interface effectively could save you significant time and effort. Whether…

Working on molecular models often involves creating presentations that effectively communicate your findings. A common challenge is maintaining the viewer’s attention or ensuring crucial frames of a presentation receive adequate focus. This is where the Pause animation in SAMSON’s Animator…

Molecular modelers often face the challenge of maintaining a clear and steady view of a selected part of a molecular system, especially when animating complex trajectories. The Look at atoms animation feature in SAMSON provides an elegant solution by ensuring…

Transparency is a powerful tool in molecular modeling—it helps in highlighting certain features while deemphasizing others. But what if you could automate transparency shifts for better communication and visualization? The Pulse animation in SAMSON offers a solution by letting you…