CG simulations with the SIRAH force field inherited setups, formats, atom types, partial charges, and other parameters from standard atomistic MD simulations. Consequently, anyone familiar with GROMACS, AMBER, or NAMD can easily perform a SIRAH CG simulation.
Download SIRAH at SIRAH GitHub and uncompress the *.tgz file
Add all hydrogens following the correct protonation states of each residue at a given pH
Map an all-atom coordinate file to CG representantion with the SIRAH Tool's cgconv.pl script
Build the topology of your system using Ambertools or GMX tools just like standard atomistic MD simulations
Run your CG sytem with with AMBER, GROMACS, or NAMD
Analyze your simulation with VMD and the SIRAH Tools plugin in VMD
You can learn how to use SIRAH in AMBER, GROMACS, and NAMD by reading the helpful tutorials on the SIRAH documentation page.
There are also tutorials on how to use SIRAH Tools and do trajectory analysis with VMD.