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Quaternion – used to optimise RMSD calculations; Kabsch algorithm – an algorithm used to minimize the RMSD by first finding the best rotation [3] GDT – a different structure comparison measure; TM-score – a different structure comparison measure; Longest continuous segment (LCS) — A different structure comparison measure
The Kabsch algorithm, also known as the Kabsch-Umeyama algorithm, [1] named after Wolfgang Kabsch and Shinji Umeyama, is a method for calculating the optimal rotation matrix that minimizes the RMSD (root mean squared deviation) between two paired sets of points.
In experimental psychology, the RMSD is used to assess how well mathematical or computational models of behavior explain the empirically observed behavior. In GIS, the RMSD is one measure used to assess the accuracy of spatial analysis and remote sensing. In hydrogeology, RMSD and NRMSD are used to evaluate the calibration of a groundwater ...
Examples of correlation between RCI and other methods of measuring motional amplitudes in proteins. NMR RMSD - root mean square fluctuations of atomic coordinates in NMR ensembles, MD RMSD - root mean square fluctuations of atomic coordinates in MD ensembles, S2 - model-free order parameter, RCI - random coil index, B-factor - temperature factor of X-ray structures; RCI->NMR RMSD - root mean ...
The TM-score is intended as a more accurate measure of the global similarity of full-length protein structures than the often used RMSD measure. The TM-score indicates the similarity between two structures by a score between ( 0 , 1 ] {\displaystyle (0,1]} , where 1 indicates a perfect match between two structures (thus the higher the better ...
scikit-learn (formerly scikits.learn and also known as sklearn) is a free and open-source machine learning library for the Python programming language. [3] It features various classification, regression and clustering algorithms including support-vector machines, random forests, gradient boosting, k-means and DBSCAN, and is designed to interoperate with the Python numerical and scientific ...
Example of separation into subarrays (2D ESPRIT) Estimation of signal parameters via rotational invariant techniques (ESPRIT), is a technique to determine the parameters of a mixture of sinusoids in background noise.
SNOPT is mainly written in Fortran, but interfaces to C, C++, Python and MATLAB are available. It employs a sparse sequential quadratic programming (SQP) algorithm with limited-memory quasi-Newton approximations to the Hessian of the Lagrangian. It is especially effective for nonlinear problems with functions and gradients that are expensive to ...