options:

-h, --help

show this help message and exit

-c, --cite

print citation info and exit

-v, --version

print ProDy version and exit

subcommands:

{anm,gnm,pca,eda,align,blast,biomol,catdcd,contacts,fetch,select,energy,clustenm}

anm

perform anisotropic network model calculations

gnm

perform Gaussian network model calculations

pca

perform principal component analysis calculations

eda

perform essential dynamics analysis calculations

align

align models or structures

blast

blast search Protein Data Bank

biomol

build biomolecules

catdcd

concatenate dcd files

contacts

identify contacts between a target and ligand(s)

fetch

fetch a PDB file

select

select atoms and write a PDB file

energy

fix missing atoms, solvate, minimise and calculate energy

clustenm

run clustenm(d) simulations

See 'prody <command> -h' for more information on a specific command.