Man pages for AIUQ
Ab Initio Uncertainty Quantification
| AIUQ-package | AIUQ: Ab Initio Uncertainty Quantification |
| aniso_SAM | Scattering analysis of microscopy for anisotropic processes |
| aniso_SAM-class | Anisotropic SAM class |
| aniso_simulation | Simulate anisotropic 2D particle movement |
| aniso_simulation-class | Anisotropic simulation class |
| anisotropic_bm_particle_intensity | Simulate 2D particle trajectory follows anisotropic Brownian... |
| anisotropic_fbm_ou_particle_intensity | Simulate 2D particle trajectory follows anisotropic fBM plus... |
| anisotropic_fbm_particle_intensity | Simulate 2D particle trajectory follows anisotropic fBM |
| anisotropic_log_lik | Log likelihood for anisotropic processes |
| anisotropic_log_lik_grad | Gradient of log likelihood for anisotropic processes |
| anisotropic_numerical_msd | Compute anisotropic numerical MSD |
| anisotropic_ou_particle_intensity | Simulate 2D particle trajectory follows anisotropic OU... |
| bm_particle_intensity | Simulate 2D particle trajectory follows Brownian Motion |
| cart2polar | Transform Cartesian coordinates to polar coordinates |
| corr_fBM | Construct correlation matrix for FBM |
| fbm_ou_particle_intensity | Simulate 2D particle trajectory follows fBM plus OU |
| fbm_particle_intensity | Simulate 2D particle trajectory follows fBM |
| FFT2D | 2D Fourier transformation and calculate wave number |
| fftshift | fftshift |
| fill_intensity | Construct intensity profile for a given particle trajectory |
| get_dqt | Compute observed dynamic image structure function |
| get_est_param | Transform parameters estimated in SAM class to parameters... |
| get_est_parameters_MSD_SAM_interval | Construct 95% confidence interval |
| get_est_parameters_MSD_SAM_interval_anisotropic | Construct 95% confidence interval for anisotropic processes |
| get_grad_trans | Construct parameter transformation for optimization using... |
| get_initial_param | Construct initial values for the parameters to be optimized... |
| get_isf | Compute empirical intermediate scattering function |
| get_MSD | Construct MSD |
| get_MSD_with_grad | Construct MSD and MSD gradient with transformed parameters |
| get_true_param_aniso_sim | Transform parameters in anisotropic simulation class to... |
| get_true_param_sim | Transform parameters in simulation class to parameters... |
| intensity_format_transform | Transform intensity profile into SS_T matrix |
| l2_estAB | Compute l2 loss for Dqt |
| l2_fixedAB | Compute l2 loss for Dqt with fixed A(q) and B |
| log_lik | Log likelihood of the model |
| log_lik_grad | Gradient of log likelihood |
| modeled_dqt | Compute modeled dynamic image structure function |
| modeled_isf | Compute modeled intermediate scattering function |
| numerical_msd | Compute numerical MSD |
| ou_particle_intensity | Simulate 2D particle trajectory follows OU process |
| param_uncertainty | Compute 95% confidence interval |
| param_uncertainty_anisotropic | Compute 95% confidence interval for anisotropic processes |
| plot_intensity | Plot 2D intensity |
| plot_MSD | Plot estimated MSD with uncertainty from SAM class |
| plot_traj | Plot 2D particle trajectory |
| SAM | Scattering analysis of microscopy |
| SAM-class | SAM class |
| SAM_Dqt | Compute dynamic image structure function |
| show.aniso_sam | Show scattering analysis of microscopy for anisotropic... |
| show.aniso_simulation | Show anisotropic simulation object |
| show.sam | Show scattering analysis of microscopy (SAM) object |
| show.simulation | Show simulation object |
| simulation | Simulate 2D particle movement |
| simulation-class | Simulation class |
| theta_est_l2_dqt_estAB | Minimize l2 loss for Dqt |
| theta_est_l2_dqt_fixedAB | Minimize l2 loss for Dqt with fixed A(q) and B |
