[gmx-users] Intermolecular interactions in RDF

[Apramita Chand]

Dear All,
I have 10 peptides in my system and I want to calculate the peptide-peptide
radial distribution function.
How can I calculate only the intermolecular interactions amongst the
peptides (excluding the intramolecular peaks) without repeating the entire
simulation?
The manual has two options for this: setting -nrexcl or giving -cut option
But I am confused as to what values could be specified for such systems?


Thanks,
Apramita