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| abilene | Abilene data from Fang et al. (2007) |
| agg | Function to aggregate results from matrix to matrix |
| bayesianDynamicFilter | Function for inference with multilevel state-space model |
| bell.labs | Bell Labs 1router data from Cao et al. (2000) |
| buildPrior | Construct prior from calibration model estimates |
| buildRoutingMat | Build routing matrices for linked star topologies; that is, a set of star-topology networks with links between a subset of routers |
| buildRoutingMatrix | Build routing matrix from table of link relationships |
| buildStarMat | Build routing matrix for star network topology |
| calcN | Compute total traffic from a particular time. |
| calibration_ssm | Estimation for the linear SSM calibration model of Blocker & Airoldi (2011) |
| cmu | CMU data from Blocker & Airoldi (2011) |
| decomposeA | Compute pivoted decomposition of routing matrix A into full-rank and remainder, as in Cao et al. 2000, via the QR decomposition. |
| diag_ind | Make vector of 1-dimensional diagonal indices for square matrix |
| diag_mat | Make diagonal matrix from vector |
| dobj.dxt.tomogravity | Analytic gradient of objective function of Zhang et al. 2003 |
| getActive | Check for deterministically-known OD flows at single time |
| getSrcDstIndices | Find indices of source and destination for each point-to-point flow |
| grad_iid | Compute analytic gradient of Q-function for locally IID EM algorithm of Cao et al. (2000) |
| grad_smoothed | Compute analytic gradient of Q-function for smoothed EM algorithm of Cao et al. (2000) |
| gravity | Run tomogravity estimation on complete time series of aggregate flows |
| gravity.fit | Gravity estimation for a single time point |
| ipfp | Function to run basic IPFP (iterative proportional fitting procedure) |
| llCalibration | Evaluate marginal log-likelihood for calibration SSM |
| locally_iid_EM | Run EM algorithm to obtain MLE for locally IID model of Cao et al. (2000) |
| mle_filter | Filtering & smoothing at MLE for calibration SSM |
| move_step | Move step of sample-resample-move algorithm for multilevel state-space model |
| m_estep | Compute conditional expectations for EM algorithms of Cao et al. (2000) |
| obj.tomogravity | Objective function of Zhang et al. 2003 |
| phi_init | Simple initialization for phi in model of Cao et al. (2000) |
| Q_iid | Q function for locally IID EM algorithm of Cao et al. (2000) |
| Q_smoothed | Q function for smoothed EM algorithm of Cao et al. (2000) |
| R_estep | Compute conditional covariance matrix for EM algorithms of Cao et al. (2000) |
| smoothed_EM | Run EM algorithm to obtain MLE (single time) for smoothed model of Cao et al. (2000) |
| strphour | Convert time string to decimal hour |
| thin | Thinning vector of indices for MCMC |
| tomogravity | Run tomogravity estimation on complete time series of aggregate flows |
| tomogravity.fit | Tomogravity estimation for a single time point using L-BFGS-B |
| twMCMC | Function to run MCMC sampling for model of Tebaldi & West (1998) |
| vardi.algorithm | Run algorithm of Vardi (1996) given B and S matrices |
| vardi.compute.BS | Compute B and S matrices in algorithm of Vardi (1996) |
| vardi.iteration | Execute single iteration for algorithm of Vardi (1996) |