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ProtoMS documentation
ΒΆ
Contents:
Introduction
Formatting
Compilation and Installation
Programming Language
Building ProtoMS
Design of ProtoMS
Proteins / Solutes / Solvents / GCSolutes
Classical forcefields
Perturbations
Generic Moves
Executing ProtoMS
File output
Simulation parameters
Specifying input files
Running a Simulation
Setup and analysis tools
Input Files
Parameter / Forcefield Files
Templates
Protein File
Solute File
GCsolute File
Solvent File
Restart File
protoms.py
Tools
ambertools.py
build_template.py
calc_bar.py
calc_clusters.py
calc_density.py
calc_dg.py
calc_gcsingle.py
calc_replicapath.py
calc_rmsd.py
calc_series.py
calc_ti.py
clear_gcmcbox.py
convertatomnames.py
convertwater.py
distribute_waters.py
divide_pdb.py
generate_input.py
make_dummy.py
make_gcmcbox.py
make_single.py
merge_templates.py
pms2pymbar.py
scoop.py
solvate.py
split_jawswater.py
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