[gmx-users] make_ndx

[Mark Abraham]

sarbani chattopadhyay wrote:
>   hi,
>     I want to select two groups in the index file, one group consisting 
> of only the aromatic
> ring of phenylalanine and the other group consisting of only the alpha 
> carbon.
> I want to  know the way to use the make_ndx command for this.

After entering make_ndx, you can use "h<RETURN>" to get some primitive 
help.

In this case, you can most quickly solve your problem by hand-editing. 
See http://wiki.gromacs.org/index.php/Index_File

Mark