I want to analyse the solvent around a peptide . I used g_sdf and the output that i am getting (i.e the refmol.gro) does not have the whole peptide molecule but just the residues that i use to define the coordinate system . I then tried to use g_spatialbut its doing something very different and not spatial distibution, it looks like its executing g_cluster instead. I was wondering if g_custer and g_spatial are meant to do the same thing.
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