README.md
setup.py
AdaptivePELE/__init__.py
AdaptivePELE/setup.py
AdaptivePELE/AdaptivePELE/__init__.py
AdaptivePELE/AdaptivePELE/adaptiveSampling.py
AdaptivePELE/AdaptivePELE/automateRoundsAdaptive.py
AdaptivePELE/AdaptivePELE/makeRelease.py
AdaptivePELE/AdaptivePELE/runAllTests.py
AdaptivePELE/AdaptivePELE/analysis/__init__.py
AdaptivePELE/AdaptivePELE/analysis/addRejectedSteps.py
AdaptivePELE/AdaptivePELE/analysis/analyse.py
AdaptivePELE/AdaptivePELE/analysis/analyseClustering.py
AdaptivePELE/AdaptivePELE/analysis/backtrackAdaptiveTrajectory.py
AdaptivePELE/AdaptivePELE/analysis/compareClustering.py
AdaptivePELE/AdaptivePELE/analysis/convertTrajectory.py
AdaptivePELE/AdaptivePELE/analysis/correctRMSD.py
AdaptivePELE/AdaptivePELE/analysis/findfirstbindingevent.py
AdaptivePELE/AdaptivePELE/analysis/foldersFirstBindingEvent.py
AdaptivePELE/AdaptivePELE/analysis/histCM.py
AdaptivePELE/AdaptivePELE/analysis/makePNGs.py
AdaptivePELE/AdaptivePELE/analysis/networkCM.py
AdaptivePELE/AdaptivePELE/analysis/numberOfClusters.py
AdaptivePELE/AdaptivePELE/analysis/pathwayRMSD.py
AdaptivePELE/AdaptivePELE/analysis/plot3DNetwork.py
AdaptivePELE/AdaptivePELE/analysis/plotAdaptive.py
AdaptivePELE/AdaptivePELE/analysis/plotRMSF.py
AdaptivePELE/AdaptivePELE/analysis/plotSpawningClusters.py
AdaptivePELE/AdaptivePELE/analysis/splitTrajectory.py
AdaptivePELE/AdaptivePELE/analysis/writeClusteringStructures.py
AdaptivePELE/AdaptivePELE/analysis/writeNetworkFiles.py
AdaptivePELE/AdaptivePELE/analysis/writeTrajToSnapshot.py
AdaptivePELE/AdaptivePELE/atomset/__init__.py
AdaptivePELE/AdaptivePELE/atomset/setup.py
AdaptivePELE/AdaptivePELE/clustering/__init__.py
AdaptivePELE/AdaptivePELE/clustering/clustering.py
AdaptivePELE/AdaptivePELE/clustering/clusteringTypes.py
AdaptivePELE/AdaptivePELE/clustering/thresholdcalculator.py
AdaptivePELE/AdaptivePELE/clustering/thresholdcalculatortypes.py
AdaptivePELE/AdaptivePELE/constants/__init__.py
AdaptivePELE/AdaptivePELE/constants/blockNames.py
AdaptivePELE/AdaptivePELE/constants/constants.py
AdaptivePELE/AdaptivePELE/constants/symmetries.py
AdaptivePELE/AdaptivePELE/freeEnergies/__init__.py
AdaptivePELE/AdaptivePELE/freeEnergies/calculateAdaptiveDGiterations.py
AdaptivePELE/AdaptivePELE/freeEnergies/calculateDGiterations.py
AdaptivePELE/AdaptivePELE/freeEnergies/checkDetailedBalance.py
AdaptivePELE/AdaptivePELE/freeEnergies/cluster.py
AdaptivePELE/AdaptivePELE/freeEnergies/computeDGGrid.py
AdaptivePELE/AdaptivePELE/freeEnergies/computeDeltaG.py
AdaptivePELE/AdaptivePELE/freeEnergies/estimate.py
AdaptivePELE/AdaptivePELE/freeEnergies/estimateDG.py
AdaptivePELE/AdaptivePELE/freeEnergies/estimateDGAdaptive.py
AdaptivePELE/AdaptivePELE/freeEnergies/extendTrajectories.py
AdaptivePELE/AdaptivePELE/freeEnergies/extractCoords.py
AdaptivePELE/AdaptivePELE/freeEnergies/getRepresentativeStructures.py
AdaptivePELE/AdaptivePELE/freeEnergies/ownBuildMSM.py
AdaptivePELE/AdaptivePELE/freeEnergies/prepareMSMFolders.py
AdaptivePELE/AdaptivePELE/freeEnergies/runMarkovChainModel.py
AdaptivePELE/AdaptivePELE/freeEnergies/writeExtractedCoordsAsPDB.py
AdaptivePELE/AdaptivePELE/simulation/__init__.py
AdaptivePELE/AdaptivePELE/simulation/simulationTypes.py
AdaptivePELE/AdaptivePELE/simulation/simulationrunner.py
AdaptivePELE/AdaptivePELE/spawning/__init__.py
AdaptivePELE/AdaptivePELE/spawning/densitycalculator.py
AdaptivePELE/AdaptivePELE/spawning/densitycalculatortypes.py
AdaptivePELE/AdaptivePELE/spawning/spawning.py
AdaptivePELE/AdaptivePELE/spawning/spawningTypes.py
AdaptivePELE/AdaptivePELE/tests/__init__.py
AdaptivePELE/AdaptivePELE/tests/testAdaptiveSampling.py
AdaptivePELE/AdaptivePELE/tests/testAtomset.py
AdaptivePELE/AdaptivePELE/tests/testClustering.py
AdaptivePELE/AdaptivePELE/tests/testDensityCalculator.py
AdaptivePELE/AdaptivePELE/tests/testSpawning.py
AdaptivePELE/AdaptivePELE/tests/testThresholdcalculator.py
AdaptivePELE/AdaptivePELE/utilities/__init__.py
AdaptivePELE/AdaptivePELE/utilities/clusteringUtilities.py
AdaptivePELE/AdaptivePELE/utilities/utilities.py
AdaptivePELE/AdaptivePELE/validator/__init__.py
AdaptivePELE/AdaptivePELE/validator/controlFileValidator.py
AdaptivePELE/AdaptivePELE/validator/validatorBlockNames.py
Helpers/__init__.py
Helpers/best_structs.py
Helpers/box.py
Helpers/center_of_mass.py
Helpers/check_env_var.py
Helpers/clusterAdaptiveRun.py
Helpers/constraints.py
Helpers/helpers.py
Helpers/missing_residues.py
Helpers/msm_analysis.py
Helpers/pele_env.py
Helpers/simulation.py
Helpers/system_prep.py
Helpers/template_builder.py
Helpers/tica.py
MSM_PELE.egg-info/PKG-INFO
MSM_PELE.egg-info/SOURCES.txt
MSM_PELE.egg-info/dependency_links.txt
MSM_PELE.egg-info/requires.txt
MSM_PELE.egg-info/top_level.txt
PPP/__init__.py
PPP/adjustments_module.py
PPP/checks_module.py
PPP/coordinates_module.py
PPP/enviroment_parameters.py
PPP/geomData.py
PPP/global_processes.py
PPP/global_variables.py
PPP/hydrogens_addition.py
PPP/mut_prep4pele.py
PPP/mutational_module.py
PPP/mutations_maps_generation.py
PPP/parameters_help.py
PPP/program_own_classes.py
PPP/read_force_field_parameters.py
PlopRotTemp/PlopRotTemp.py
PlopRotTemp/__init__.py
PlopRotTemp/launcher.py
PlopRotTemp/main.py
PlopRotTemp/template/__init__.py
PlopRotTemp/template/chargeHandler.py
PlopRotTemp/template/templateBuilder.py
PlopRotTemp/template/tmp_helpers.py