This option compares proteins, using previously computed descriptors. This process calculates a distance value (Euclidean, Minkowsky or Manhattan) between all proteins using standardized values of the available descriptors.
This option is accessed using the menu "Analyze", and once there you select the RMSD-IDX, which will launch a window like the following:
The Matrix Distance window
To use this option first, a file *_Prot must load with "Load * _Prot" button, then the configuration should be fixed for the comparison process using the "Missing Values" and "Distances" panels, and finally press "Calculate" button to start the process.
The panel "Missing Values" manages the missing values (-9999.0), for which there are two options:
In the panel "Distances" there are listed the distances measures to that could be used for comparison test, these are: