Hlo All
I obtained the rmsf graph by using the command line
cpptraj
parm solv_7zzt_chainb_noh.com1_no_water.prmtop
trajin nowatermd_7zzt_chainb_noh.com2.nc
list trajin
autoimage
atomicfluct out rmsf.bfactor @CA byatom bfactor
I have run the MD for 50 ns
Now I want to obtain an ideal graph for publication purpose .
I am attaching the graph below .Plz let me know where to rectify it in command line.
Thanks