Fig. 3
From: JEDi: java essential dynamics inspector — a molecular trajectory analysis toolkit
a–d show the first four moments as JEDi outputs for immediate inspection when running the analysis driver over a trajectory. These can be used to evaluate the general statistical behavior of atoms and select subsets of residues for further analysis. In e the MSA for each atom is shown which is also output for inspection during analysis run. Finally f shows RMSF, a common metric for evaluating MD Simulation behavior