# Tools to Read, Analyze and Visualize Metadynamics 3D HILLS Files from 'Plumed'

## Documentation for package ‘metadynminer3d’ version 0.0.1

- DESCRIPTION file.

## Help Pages

acealanme3d | Hills from 30 ns metadynamics of AceAlaNme in water with three collective variable
feprof.minima3d | Calculate free energy profile for minima3d object
fes.hillsfile3d | Calculate 3D free energy surface by Bias Sum algorithm
fes2.hillsfile3d | Calculate 3D free energy surface by conventional algorithm
fesminima.fes3d | Find free energy minima in the fes3d object
head.hillsfile3d | Print first n lines of hillsfile3d
max.fes3d | Calculate maximum of 3D free energy surface
min.fes3d | Calculate minimum of 3D free energy surface
oneminimum.fes3d | Creates one ad hoc 3D free energy minimum for a fes object
plot.fes3d | Plot 3D free energy surface object
plot.hillsfile3d | Plot hillsfile3d object
plot.minima3d | Plot minima3d object
plotheights.hillsfile3d | Plot evolution of heights of hills in hillsfile3d object
print.fes3d | Print minimum and maximum of 3D free energy surface
print.hillsfile3d | Print hillsfile3d
print.minima3d | Print minima3d object
read.hills3d | Read 3D HILLS from Plumed
read.plumed3d | Read 3D free energy surface from PLUMED sum_hills
summary.fes3d | Print summary of 3D free energy surface
summary.hillsfile3d | Print summary for hillsfile3d
summary.minima3d | Print minima3d object summary
tail.hillsfile3d | Print last n lines of hillsfile3d