[gmx-users] a qiestion about using g_cluster

[Li Su]

Dear Sir/Madam,
 I am trying to use g_cluster to clusterize my protein trajectories. The 
proein core is very rigid, only loops will fluctuate. When I clusterize I 
want to clusterize only on the loops in stead of the whole protein. But when 
I use g_cluster it only offer choices on whole protein or c alpha or 
backbone and so on, all of which focus on the whole protein. I am wondering 
is there any way I can choose a part of the protein to clusterize? Thank you 
very much for your help! 

 

Best Wishes,
Li Su