An algorithm for general-purpose unconstrained non-linear optimization.
             The algorithm is of quasi-Newton type with BFGS updating of the inverse
             Hessian and soft line search with a trust region type monitoring of the
             input to the line search algorithm. The interface of 'ucminf' is
             designed for easy interchange with 'optim'.

Comprehensive analysis and forecasting 
             of univariate time series using automatic 
             time series models of many kinds.
             Harvey AC (1989) <doi:10.1017/CBO9781107049994>.
             Pedregal DJ and Young PC (2002) <doi:10.1002/9780470996430>.
             Durbin J and Koopman SJ (2012) <doi:10.1093/acprof:oso/9780199641178.001.0001>.
             Hyndman RJ, Koehler AB, Ord JK, and Snyder RD (2008) <doi:10.1007/978-3-540-71918-2>.
             Gómez V, Maravall A (2000) <doi:10.1002/9781118032978>.
             Pedregal DJ, Trapero JR and Holgado E (2024) <doi:10.1016/j.ijforecast.2023.09.004>.

Changes the column names of the inputted dataset to the correct
    names from the Uniform Crime Report codebook for the "Offenses Known and
    Clearance by Arrest" datasets from 1998-2014.

Provides functions and a Shiny application for downloading,
    analyzing and visualizing datasets from UCSC Xena
    (<http://xena.ucsc.edu/>), which is a collection of UCSC-hosted public
    databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.

Download and explore datasets from UCSC Xena data hubs, which
    are a collection of UCSC-hosted public databases such as TCGA, ICGC,
    TARGET, GTEx, CCLE, and others.  Databases are normalized so they can
    be combined, linked, filtered, explored and downloaded.

The udder quarter infection data set contains infection times of individual cow udder quarters with Corynebacterium bovis (Laevens et al. 1997 <DOI:10.3168/jds.S0022-0302(97)76295-7>). Obviously, the four udder quarters are clustered within a cow, and udder quarters are sampled only approximately monthly, generating interval-censored data. The data set contains both covariates that change within a cow (e.g., front and rear udder quarters) and covariates that change between cows (e.g., parity [the number of previous calvings]). The correlation between udder infection times within a cow also is of interest, because this is a measure of the infectivity of the agent causing the disease. Various models have been applied to address the problem of interdependence for right-censored event times. These models, as applied to this data set, can be found back in the publications found in the reference list.