[gmx-users] generalized order parameters S2

Dear all, I have run a 100ns simulation of protein. I want to calculate the generalized order parameters S2 for N-H. It was said that to calculate S2, the overall motion should be subtracted first. How can I subtract the overall motion? Can I use the command 'trjconv' to fit the protein to

Re: [gmx-users] generalized order parameters S2

Dechang Li wrote: Dear all, I have run a 100ns simulation of protein. I want to calculate the generalized order parameters S2 for N-H. It was said that to calculate S2, the overall motion should be subtracted first. How can I subtract the overall motion? Can I use the command 'trjconv'