vaccine 1.3.0
Major changes
- Allow for controlled risk (CR) curves to be estimated in placebo
arm
- Added ability to plot multiple density plots on a single graph via
the plot() function
Minor changes
- Updated trim() function to work on placebo arm data
- Removed dependency on
simest package
- Updated package logo
- Fixed bug with nonparametric CVE P-values
- Fixed bug associated with reading in datasets with categorical
covariates
- Downgraded
ranger required version from 0.16.0 to
0.14.0
vaccine 1.2.1
Minor changes
- Fixed a bug that displayed an incorrect package version number at
startup.
- Tweaked the SuperLearner library involved in standard error
estimation for
est_ce(..., type="NP"), resulting in
improved performance.
- Fixed a bug related to
plot_ce(..., density_type="kde edge").
- Fixed a minor bug related to the
SuperLearner package
introduced in version 1.2.0.
vaccine 1.2.0
Major changes
- Added the
trim function, which can be used in
conjunction with the plot_ce function to truncate the
display of estimate objects produced by est_ce.
Specifically, estimates with X-coordinates that lie outside specified
quantiles of the observed distribution of the marker are removed. See
package vignette and examples.
- Added the
as_table function, which formats estimate
objects produced using est_ce as a table.
Minor changes
- Implemented various changes to the
plot_ce function:
added background kernel density plotting, changed default plot styling,
fixed a bug that caused CR plots to be displayed instead of CVE plots
when plot_ce(..., which="CVE") was called, and added to the
plotting section of the main package vignette.
vaccine 1.1.0
Major changes
- In
est_ce, added the option
return_p_value; if set to TRUE, a P-value will
be returned corresponding to the null hypothesis that the CVE curve (or
equivalently, the CR curve in the vaccine group) is constant. If
type='Cox' is specified, this will be a Wald-type test
using the estimated Cox model parameter vector. If
type='NP', this will be a nonparametric test assuming
monotonicity of the curve.
Minor changes
- Fixed importing of factor/character variables in
load_data.
vaccine 1.0.0
Major changes
- Added functions for nonparametric estimation and inference for
mediation analysis parameters, including the natural direct effect, the
natural indirect effect, and the proportion mediated.
- Adapted nonparametric and Cox-based CVE estimation and inference to
handle settings in which some or all covariates are measured only in
phase two (e.g., applicable to settings in which researchers want to
control for a baseline biomarker measurement).
- Added confidence band monotonization for nonparametric CVE
inference.
Minor changes
- Various minor bug fixes and code speed improvements.
- Completed unit testing framework and increased code coverage to
67%.
vaccine 0.1.0
Major changes
Minor changes