lipidthick_analysis
This tool calculates thickness of lipid bilayers, the distance in z-direction between the phosphate groups in upper leaflet and ones in lower leaflet.
[INPUT]
psffile = DPPC.psf
reffile = DPPC.pdb
[OUTPUT]
outfile = DPPC_thickness.txt
[TRAJECTORY]
trjfile1 = DPPC_run.dcd
md_step1 = 10000
mdout_period1 = 10
ana_period1 = 10
trj_format = DCD
trj_type = COOR+BOX
[SELECTION]
group1 = rnam:DPPC & (an:P) # specify atoms used for the lipidthick measurement
[OPTION]
check_only = NO
membrane_atom = 1 # atom group representing lipid bilayer