4. Examples
vega
vega my_file.car
vega my_file.cssr.gz f info
vega my_file.car o new_file b -n
vega my_file.arc o new_file.car f biosym p cvff
vega file1.pdb file2.dat o assembly.iff f iff -w -a
vega my_file.mol2 o new_file p cvff c gasteiger f pdbf
vega receptor.car ligand.car f cvff d 30 e 9999
vega my_file.msf o surface.srf f QuantaSrf s 20
vega my_file.msf o surface f BiosymSrf g 0
vega my_trajectory.CRD -o my_mesure.csv -f csv -m distance CA:ALA:1 360
vega my_file.hin -o solvated.pdb -i water 10 sphere
vega my_file.fas -o my_file_3d.iff -f Iff -t AlphaHelix
vega my_file.pdb -o my_file_3d -t phi=-135 psi=135