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In bioinformatics, the root mean square deviation of atomic positions is the measure of the average distance between the atoms of superimposed proteins. In structure based drug design , the RMSD is a measure of the difference between a crystal conformation of the ligand conformation and a docking prediction.
Physical scientists often use the term root mean square as a synonym for standard deviation when it can be assumed the input signal has zero mean, that is, referring to the square root of the mean squared deviation of a signal from a given baseline or fit. [8] [9] This is useful for electrical engineers in calculating the "AC only" RMS of a signal.
In bioinformatics, the root mean square deviation of atomic positions, or simply root mean square deviation (RMSD), is the measure of the average distance between the atoms (usually the backbone atoms) of superimposed molecules. [1]
In probability theory and statistics, the coefficient of variation (CV), also known as normalized root-mean-square deviation (NRMSD), percent RMS, and relative standard deviation (RSD), is a standardized measure of dispersion of a probability distribution or frequency distribution.
This definition for a known, computed quantity differs from the above definition for the computed MSE of a predictor, in that a different denominator is used. The denominator is the sample size reduced by the number of model parameters estimated from the same data, ( n − p ) for p regressors or ( n − p −1) if an intercept is used (see ...
There are associated concepts, such as the DRMS (distance root mean square), which is the square root of the average squared distance error, a form of the standard deviation. Another is the R95, which is the radius of the circle where 95% of the values would fall, a 95% confidence interval.
While the standard deviation does measure how far typical values tend to be from the mean, other measures are available. An example is the mean absolute deviation, which might be considered a more direct measure of average distance, compared to the root mean square distance inherent in the standard deviation.
If the noise has expected value of zero, as is common, the denominator is its variance, the square of its standard deviation σ N. The signal and the noise must be measured the same way, for example as voltages across the same impedance. Their root mean squares can alternatively be used according to: