PACKMOL creates an initial point for molecular dynamics
simulations by packing molecules in defined regions of space. The
packing guarantees that short range repulsive interactions do not
disrupt the simulations.
The great variety of types of spatial constraints that can be attributed
to the molecules, or atoms within the molecules, makes it easy to create
ordered systems, such as lamellar, spherical or tubular lipid layers.
The user must provide only the coordinates of one molecule of each type,
the number of molecules of each type and the spatial constraints that
each type of molecule must satisfy.
The package is compatible with input files of PDB, TINKER, XYZ and MOLDY
formats.
See also: ComplexMixtures.jl: A powerful
package to understand solvation structures in complex solutions.
CellListMap.jl: Efficient and
customizable cell list data structure for molecular simulations and customizable
simulation analysis.