Infrastructure for ordering objects with an implementation of several
    seriation/sequencing/ordination techniques to reorder matrices, dissimilarity
    matrices, and dendrograms. Also provides (optimally) reordered heatmaps,
    color images and clustering visualizations like dissimilarity plots, and
    visual assessment of cluster tendency plots (VAT and iVAT). Hahsler et al (2008) <doi:10.18637/jss.v025.i03>.

Compose multiple dynamic failure rate distributions into
    series system distributions where the system hazard equals the sum
    of component hazards. Supports hazard, survival, cumulative
    distribution function, density, sampling, and maximum likelihood
    estimation fitting via the dfr_dist() class from 'flexhaz'. Series
    distributions implement the 'dist.structure' protocol so structural
    queries (phi, min_paths, min_cuts, system_signature, structural
    importance, reliability, dual) and the importance measures from
    'dist.structure' work directly on serieshaz objects. Methods for
    series system reliability follow Barlow and Proschan (1975,
    ISBN:0898713692).

Calculate and compare lower confidence bounds for binomial series system reliability. The R 'shiny' application, launched by the function launch_app(), weaves together a workflow of customized simulations and delta coverage calculations to output recommended lower confidence bound methods.

Translates antibody levels measured in cross-sectional
    population samples into estimates of the frequency with which
    seroconversions (infections) occur in the sampled populations.
    Replaces the previous `seroincidence` package.

Implements Bayesian hierarchical models for estimating
    antibody kinetic parameters from longitudinal serological data. Fits
    two-phase within-host models capturing antibody rise, peak, and decay
    following pathogen infection, using 'JAGS' for posterior inference.
    Designed as the upstream companion to the 'serocalculator' package
    for end-to-end seroepidemiological analysis. Methods are described in
    Teunis and colleagues (2016) <doi:10.1016/j.epidem.2016.04.001> and Teunis
    and van Eijkeren (2020) <doi:10.1002/sim.8578>.