Changes in version 0.17.1                        

  - netbenefit_() now treats NA in any endpoint column as "tied at that
    level, fall through" rather than erroring deep in the U-statistic
    loop, and warns once per fit listing the affected columns.

                       Changes in version 0.17.0                        

New features

  - netbenefit_() adapter for the hierarchical net-benefit
    (win-difference) statistic, with endpoints built by nb_tte(),
    nb_continuous(), or nb_binary() and priority encoded by list order.

                       Changes in version 0.16.4                        

Tests

  - New test-inplace-formula.R verifies that in-place formula
    transformations (I(z > 4), log(x), scale(x), factor(x), Surv(t /
    c, 1 - cnsr), multi-variable Boolean expressions, and LHS
    arithmetic) produce numerically identical PATED output to the
    pre-computed-column equivalents, across coxph_() primaries and
    glm_() prognostic specs.

                        Changes in version 0.16                         

Breaking changes

  - multipleOutcomes() and the legacy *MO() wrappers (coxphMO, glmMO,
    geeMO, logrankMO, kmMO, quantileMO) are removed. The package's main
    entry point is now jointCovariance(), and each component model is
    specified through a constructor: glm_(), coxph_(), logrank_(),
    gee_(), mmrm_(), km_(), or quantile_(). pated() accepts the same
    spec constructors via ....
  - Datasets supplied to jointCovariance() / pated() must now contain a
    column pid carrying subject identifiers. Records with the same pid
    across different data frames refer to the same subject.

New features

  - mmrm_() adapter for mixed models with repeated measures.
  - km_() adapter for Kaplan-Meier survival probabilities
    (bootstrap-only, since the empirical S(t) has no closed-form score).
  - quantile_() adapter for between-arm quantile differences
    (bootstrap-only).
  - gee_() adapter exposing a GEE fit's per-cluster score and Hessian so
    it slots into the joint asymptotic covariance machinery alongside
    other engines.
  - conf_type = "arcsin" is fully supported in km_() (previously
    silently fell back to logit transformation).

User-experience improvements

  - data_index defaults to 1 in every spec constructor, and a single
    data frame is auto-wrapped, so jointCovariance(spec1(...),
    spec2(...), data = my_df) is the shortest valid call.
  - Spec constructors validate data_index (must be a positive integer
    scalar); jointCovariance() adds an upfront bounds check naming the
    offending spec when data_index exceeds the number of supplied data
    frames.
  - pated() emits a warning when the residual variance goes negative —
    typically a sign that a prognostic variable is collinear with the
    primary outcome or with another prognostic.

Bug fixes

  - KMAdapter$fit_model() no longer strips the names off self$estimate,
    so id_map entries for KM models now carry the time_(strata)_(time)
    labels that pated()'s arm lookup relies on.
  - parseTreatmentVariableFromCall() now walks the formula AST instead
    of regex-parsing the deparsed call, so formulas with nested
    parentheses (e.g., y ~ arm + us(visit | pid) for mmrm_) parse
    correctly.
  - fitKMCurve() uses survival::summary(..., extend = TRUE)
    consistently, preventing NAs from leaking into the bootstrap
    covariance matrix when a resample's stratum has no observations past
    a requested time.
  - pated() no longer relies on is.null(family), which silently bound
    stats::family (a function) after the family argument was removed.

Documentation, testing, and tooling

  - New testthat suite (52 tests / 245 expectations) covering every
    engine through both jointCovariance() and pated(). Tests are split
    into a fast tier (~4 s) and a Monte Carlo tier (~25 s, opt-in via
    MULTIPLEOUTCOMES_RUN_MC=1) that validates empirical vs. theoretical
    covariance for single-engine, cross-engine, partial-overlap, and
    kitchen-sink configurations.
  - Regression fixture for the README example pinned to 1e-10 (file
    inst/testdata/readme_pated_reference.rds).
  - GitHub Actions workflows for code coverage (codecov) and pkgdown.
  - README example, vignette, and help-page examples migrated to the new
    spec-constructor API.

                        Changes in version 0.15                         

  - Initial support for Kaplan-Meier in the new spec-constructor
    interface via km_().
  - pated() extended to handle KM time-stratum parameter vectors,
    including transformed-S(t) point estimates, pointwise confidence
    intervals, and KM-vs-PATED curve comparison plots.

                        Changes in version 0.14                         

  - See git history.