The weighted histogram analysis method (WHAM) is a standard protocol for postprocessing the information from biased umbrella sampling simulations to construct the potential of mean force with respect to a set of order parameters. By virtue of the WHAM equations, the unbiased density of state is determined by satisfying a self-consistent condition through an iterative procedure. While the method works very effectively when the number of order parameters is small, its computational cost grows rapidly in higher dimension. Here, we present a simple and efficient alternative strategy, which avoids solving the self-consistent WHAM equations iteratively. An efficient multivariate linear regression framework is utilized to link the biased probabili...
Practical free energy reconstruction algorithms involve three separate tasks: biasing, measuring som...
In the host of numerical schemes devised to calculate free energy differences by way of geometric tr...
The potential of mean force describing conformational changes of biomolecules is a central quantity ...
The weighted histogram analysis method (WHAM) has become the standard technique for the analysis of ...
Abstract. When studying high-dimensional dynamical systems such as macromolecules, quan-tum systems ...
We demonstrate how the Gaussian process regression approach can be used to efficiently reconstruct f...
We demonstrate how a prior assumption of smoothness can be used to enhance the reconstruction of fre...
Abstract: The Weighted Histogram Analysis Method (WHAM) is a standard technique used to compute pote...
We present an algorithm to calculate free energies and rates from molecular simulations on biased po...
The potential of mean force describing conformational changes of biomolecules is a central quantity ...
The weighted histogram analysis method (WHAM) is widely used to obtain accurate free energies from b...
The weighted histogram analysis method (WHAM) and unbinned versions such as the multistate Bennett a...
Enhanced sampling techniques have become an essential tool in computational chemistry and physics, w...
The Weighted Histogram Analysis Method (WHAM) is a technique used to calculate free energy from mole...
A robust importance-sampling algorithm for mapping free-energy surfaces over geometrical variables, ...
Practical free energy reconstruction algorithms involve three separate tasks: biasing, measuring som...
In the host of numerical schemes devised to calculate free energy differences by way of geometric tr...
The potential of mean force describing conformational changes of biomolecules is a central quantity ...
The weighted histogram analysis method (WHAM) has become the standard technique for the analysis of ...
Abstract. When studying high-dimensional dynamical systems such as macromolecules, quan-tum systems ...
We demonstrate how the Gaussian process regression approach can be used to efficiently reconstruct f...
We demonstrate how a prior assumption of smoothness can be used to enhance the reconstruction of fre...
Abstract: The Weighted Histogram Analysis Method (WHAM) is a standard technique used to compute pote...
We present an algorithm to calculate free energies and rates from molecular simulations on biased po...
The potential of mean force describing conformational changes of biomolecules is a central quantity ...
The weighted histogram analysis method (WHAM) is widely used to obtain accurate free energies from b...
The weighted histogram analysis method (WHAM) and unbinned versions such as the multistate Bennett a...
Enhanced sampling techniques have become an essential tool in computational chemistry and physics, w...
The Weighted Histogram Analysis Method (WHAM) is a technique used to calculate free energy from mole...
A robust importance-sampling algorithm for mapping free-energy surfaces over geometrical variables, ...
Practical free energy reconstruction algorithms involve three separate tasks: biasing, measuring som...
In the host of numerical schemes devised to calculate free energy differences by way of geometric tr...
The potential of mean force describing conformational changes of biomolecules is a central quantity ...