Index

C

CosolventExperiment (class in amberpy.experiments)

D

directory (amberpy.experiments.Experiment attribute)

E

Experiment (class in amberpy.experiments)

M

make_system() (amberpy.experiments.CosolventExperiment method) (amberpy.experiments.ProteinExperiment method)

N

name (amberpy.experiments.Experiment attribute)

P

PackmolInput (class in amberpy.md_setup) protein_termini (amberpy.experiments.Experiment property)

ProteinCosolventExperiment (class in amberpy.experiments) ProteinExperiment (class in amberpy.experiments)

R

replica_name (amberpy.experiments.Experiment attribute) root_directory (amberpy.experiments.Experiment attribute) run() (amberpy.md_setup.PackmolInput method) (amberpy.md_setup.TleapInput method)

run_packmol() (amberpy.md_setup.Setup method) run_parmed() (amberpy.md_setup.Setup method) run_tleap() (amberpy.md_setup.Setup method)

S

Setup (class in amberpy.md_setup)

T

TleapInput (class in amberpy.md_setup)