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Index

A | B | C | D | E | F | G | H | I | J | L | M | O | P | R | S | T | U | V

A

Angle Potential
averages

B

Bond Potential
bond restraint
born
boundary

C

Cartesian restraint
chunk
combination rules
Coulomb Potential
cutoff
cuttype

D

debug
Deletion Moves
design
Dihedral Potential
dihedral restraint
dlambda
dryrun
Dual Topology
dump files

E

equilibrate

F

fakesime
feather
fixbackbone
fixresidues
Forcefields
freeenergy

G

GBSA Potential
gcmc
GCSolute Moves
GCSolutes
grand

H

hardwall restraint

I

Insertion Moves
Intermolecular Potential
Intramolecular non-bonded Potential

J

jaws1
jaws2
jbias

L

lambda
lambda chunk
lambdaladder
lambdare

M

maxvolchange
mode angle
mode bond
mode born
mode clj
mode dihedral
mode info
mode surface
mode ureybradley
Move Probabilities

O

origin
Output

P

parfile
pdb command
pdbparam
Perturbations
potential, [1]
prefsampling
pressure
prettyprint
printfe
printmove
protein, command
Proteins

R

ranseed
resetgb
Residue Moves
restart command
restraints
retienergy

S

Sample Moves
setstream
simulate
Single Topology
singlepoint
softcore
softcoreparams
Solute Moves
solute, command
solutenergy
Solutes
solutetempering
solvent chunk
Solvent Moves
Solvents
splitgbsasimulate
Streams
surface

T

temperature
temperatureladder
temperaturere
testenergy
Theta Moves
thres

U

Urey-Bradley Potential

V

van der Waals Potential
Volume Moves

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© Copyright 2015, C. J. Woods, J Michel, M. Bodnarchuk, S. Genheden, R. Bradshaw, G. Ross, C. Cave-Ayland, A. I. Cabedo Martinez, J. Graham. Created using Sphinx 1.3.3.