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also cite the WHAM paper that is referenced by the Grossfield code docs
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journal-article.bib

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@@ -613,6 +613,18 @@ @article{kumar1992weighted
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publisher={Wiley Online Library}
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}
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@article{kumar1995multidim,
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title = {Multidimensional free-energy calculations using the
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weighted histogram analysis method},
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author = {Kumar, Shankar and Rosenberg, John M. and Bouzida,
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Djamal and Swendsen, Robert H. and Kollman, Peter A.},
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journal = {Journal of Computational Chemistry},
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volume = {16},
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number = {11},
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pages = {1339-1350},
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doi = {https://doi.org/10.1002/jcc.540161104},
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}
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@article{oostenbrink2004biomolecular,
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title={A biomolecular force field based on the free enthalpy of hydration and solvation: the {{GROMOS}} force-field parameter sets {{53A5}} and {{53A6}}},
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author={Oostenbrink, Chris and Villa, Alessandra and Mark, Alan E and van Gunsteren, Wilfred F},

lammps-tutorials.tex

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@@ -3901,7 +3901,7 @@ \subsubsection{Method 2: Umbrella sampling}
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we apply a potential $V$ and force it to move along the $x$-axis. The chosen path
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is called the axis of reaction. Several simulations (called windows) will be
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conducted with varying positions for the center of the applied biasing. The results
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will be analyzed using the weighted histogram analysis method (WHAM)~\cite{kumar1992weighted},
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will be analyzed using the weighted histogram analysis method (WHAM)~\cite{kumar1992weighted,kumar1995multidim},
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which allows for the removal of the biasing effect and ultimately deduces the
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unbiased free energy profile.
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To generate the free energy profile from the particle positions
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saved in the \flecmd{umbrella-sampling.i.dat} files,
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we use the WHAM algorithm as implemented by Marc Grossfield~\cite{grossfieldimplementation}.
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we use the WHAM~\cite{kumar1992weighted,kumar1995multidim} algorithm as implemented by Marc Grossfield~\cite{grossfieldimplementation}.
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You can download it from \href{http://membrane.urmc.rochester.edu/?page_id=126}{Alan Grossfield}'s
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website. The executable called \flecmd{wham} generated by following the instructions
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from the website must be placed next to \flecmd{umbrella-sampling.lmp}. To apply

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