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clean up index
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@@ -61,12 +61,6 @@ use the `Cinnabar Python package <https://github.com/OpenFreeEnergy/cinnabar>`
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to analyze (e.g. generating MLE estimates of absolute free energies)
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and plot networks of relative free energy results.
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Molecular Dynamics (MD) protocol tutorial
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-----------------------------------------
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The :any:`MD protocol <md_tutorial>`
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tutorial walks users through how to run an MD simulation of benzene bound to
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T4-lysozyme L99A in OpenFE.
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.. toctree::
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:maxdepth: 1
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