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zotfile_doctor
Zotfile directory consistency checkervmd_density_profile
Computing 1-D atomic densities in macromolecular simulations: The density profile tool for VMD.vmd_diffusion_coefficient
Computing Diffusion Coefficients in Macromolecular Simulations: The Diffusion Coefficient Tool for VMDvmd_plumed
Main code repository for the PLUMED-GUI plugin for VMDminiomm
A simple OpenMM wrapper for common-case MD runsvmd_misc
Development branch - not for general useopenmm-plumed-tests
Alanine dipeptide OpenMM-Plumed testACEMD-PLUMED
Running biased simulations with PLUMED and ACEMDanalysis_libraries_chapter
Analysis libraries for molecular trajectories: a cross-language synopsisCHARMM_GUI_GROMACS_5_fixup
Fixup for CHARMM-GUI and GROMACS52017-PLUMED-workshop
Raw material for the presentation at the PLUMED 2017 workshop in Trieste2019-Markov-Tutorial-UniMi
Material for the Markov + MD Lecture @ Unimi2021-Markov-Tutorial-BCN
Material for the Markov + MD Lecture @ Master MSI Barcelona2022-MD-Trajectory-Tutorial-UniPD
For Prof. Fuxreiter's course2023-Markov-Tutorial-UniPD
Markov tutorial for prof. Fuxreiter's course.2020-Markov-Tutorial-BCN
Material for the Markov + MD Lecture @ Master MSI Barcelona2019-Markov-Tutorial-BCN
Material for the Markov + MD Lecture @ Master MSI Barcelona2019-PlumedAutoDiff-Lugano
Code accompanying my talk at *Open source software for enhanced-sampling simulations*Love Open Source and this site? Check out how you can help us