derive_shk()’s equation not rendering on the
pkgdown site by switching to katex math rendering. (#88)as_leveler() as the generic leveler
constructor, with an example of defining custom levels directly.
(#89)xtras_data(), a wrapper around
xpose::xpose_data() %>% as_xp_xtras() that silences the
rlang_warning-batched chatter
readr/dplyr can raise while parsing tables
with NaN/Inf or otherwise oddly formatted
values, without hiding warnings that indicate an actual read failure.
xp_from_bbr() now uses it internally. (#77)recalc_shk(), which recalculates eta shrinkage
directly from individual estimates rather than parsing NONMEM’s own
reported value, with a .etastype argument to exclude “true
zero” (as opposed to merely near-zero) etas from the calculation. Etas
are matched to their omega by column name where possible (eg
nlmixr2 models), falling back to NONMEM’s
ETA<k>/OMEGA(k,k) numbering convention.
(#79)shk variable type, plus
derive_shk()/backfill_shk() to populate it: a
per-individual eta shrinkage contribution diagnostic
(log((eta - mean(eta))^2)). (#78)shk_grid()/shk_vs_cov_grid()/shk_vs_contcov()/
shk_vs_catcov(), mirroring
eta_grid()/eta_vs_cov_grid()/
eta_vs_contcov()/eta_vs_catcov() for the new
shk diagnostic. (#78)list = FALSE to
eta_vs_contcov()/eta_vs_catcov()/
shk_vs_contcov()/shk_vs_catcov(), combining
the per-variable plots onto one shared, faceted plot instead of a list,
paginating at 9 panels per page. (#82)covvar to
eta_vs_contcov()/eta_vs_catcov()/
shk_vs_contcov()/shk_vs_catcov() to select
specific covariates, mirroring etavar/shkvar;
also added as a cols alias on
eta_vs_cov_grid()/shk_vs_cov_grid().
(#82)normalize_etas()/normalise_etas(),
which set a top-level xpdb$normalize_etas slot (like
$covs, see add_cov_association() – not an
xpdb$options entry, and not settable via
set_option()) dividing each eta by its omega-implied SD
(or, with .use_sd = TRUE, the empirical SD of its
individual estimates) in eta_grid()/
eta_vs_cov_grid()/eta_vs_contcov()/eta_vs_catcov()
only – the underlying data is never modified. (#81)nlmixr2_as_xtra() now reports the rejected object’s
class when xpose.nlmixr2::xpose_data_nlmixr2() doesn’t
recognize it as an nlmixr2 fit, instead of only the generic
upstream message.backfill_iofv() now gives a clear error when called
without xpdb instead of a cryptic cli
formatting failure. (#84)print.xpose_data()/print.xp_xtras()
erroring instead of printing whenever any xpdb$options
entry is a multi-element list (eg
default_labs/default_watermark with more than
one key set). (#81)xpdb$foo <- value/xpdb[["foo"]] <- value
(including inside patch_condn(), run automatically by
as_xpdb_x()) could silently strip the
xp_xtras/xpose_data classes on
ggplot2 versions before 4.0, due to a class-name collision
with ggplot2’s internal aes() mapping class.
(#74)conflicted is now an optional (Suggests) dependency
instead of a hard requirement, and is only consulted if the user has
loaded it themselves. Package startup no longer prints a “Registered S3
method overwritten” notice for print.xpose_plot, and the
reminder to attach xpose now also names any
load-order-sensitive bugfix at stake. (#72)irep() is no longer deprecated in favor of
xpose::irep() for xpose >= 0.5.0:
xpose reverted that upstream fix, so this package’s version
is needed again regardless of the installed xpose
version.catdv_vs_ipred() no longer triggers a spurious
ggplot2 lifecycle warning (incorrectly blaming
xpose) by mapping size to its line layer,
where it’s deprecated in favor of linewidth. (#75)set_var_types_x() no longer mistypes columns when a
tidyselect expression matches 10+ columns for one type
(e.g. eta = matches(...)), or when one type name is a
prefix of another (e.g. id/idv). (#76)xp_from_bbr() converts a ‘bbr’ model directly into an
xp_xtras object.add_cov_association(), prm_cov() family) with
xplot_forest() / cov_forest() visualization;
see the new parameter-associations vignette.cormat() visualizes the parameter
correlation/covariance matrix, for both NONMEM and nlmixr2 models.catdv_vs_occ() and catdv_vs_ipred() add
categorical DV diagnostic plots (observed-vs-predicted trend across
occasions, and binned calibration).left_join_x() backfills missing variables into an xpdb
via a coalescing left join.set_default_labs(), add_watermark(),
ggsave_xp()), configurable via
set_xtras_options() and auto-applied on print/save. See the
new plot-output vignette.patch_condn() corrects
‘xpose’s condition number calculation for multi-method NONMEM runs, applied automatically byas_xpdb_x()`.focus_function() / focus_qapply() now
support output-generating functions (plots, tables), not just
xpdb-transforming ones.logLik(), AIC(), and
BIC() methods for xpose_data and
xpose_set objects.ind_plots_sample() plots a representative (optionally
stratified) sample of individuals instead of the whole dataset.plot.xpose_data() runs a configurable batch of
diagnostic plots in one call.process_preset() family saves and replays a reusable
xpdb processing pipeline by name, optionally persisted across
sessions.set_dv_probs() no longer crashes when
.problem is omitted.conflicted preferences are now re-applied regardless of
package attach order, fixing spurious “found in 2 packages” errors.%p%.as_xpdb_x() / check_xpdb_x()
erroring on xpose_data objects with no table data.xplot_pairs() silently ignoring a custom
catcont_opts$other_fun, and removed an unreachable leftover
duplicate-axis-label block in roc_by_mod().nlmixr_example() / nlmixr2_example() to avoid
loading nlmixr2est when not installed.
Need a high-speed mirror for your open-source project?
Contact our mirror admin team at info@clientvps.com.
This archive is provided as a free public service to the community.
Proudly supported by infrastructure from VPSPulse , RxServers , BuyNumber , UnitVPS , OffshoreName and secure payment technology by ArionPay.