qgcomp v2.8.6
Major changes
Minor changes
Bug fixes
- Fixed misuse of “all.equal” in tests
qgcomp v2.8.5
Major changes
Minor changes
- Handling of parallel processing through futures: bringing in line with package recommendations and planned deprecations.
- Documentation changes
qgcomp v2.8.0
Major changes
- Exposed simulation functions to the user
- Enabled no-intercept models in qgcomp.boot and qgcomp.noboot
Minor changes
- Parallel code now enables external setting of if(parplan) future::plan to facilitate broader parallelization schemes
- Documentation improvements
- Included FAQs in vignette
qgcomp v2.7.0
Major changes
Minor changes
- Changed underlying parallel code to adapt to deprecations from future package
- Documentation improvements
- Enabled by-observation limit of detection/right censoring point for mice.impute.leftcensorlognorm
Bug fixes
qgcomp v2.6.0
Major changes
- Added
cox.survcurve.boot
function to estimate survival curves from a qgcomp.cox.boot fit
- Refactored plot code (changes should be invisible to users except bug fixes)
Minor changes
- documentation improvements
- Changed “pointwisebound.*” and “modelbounds.*” to give more sensible output
Bug fixes
- Fix bug in tidy when using Cox model
- Bug fixes in bounds calculation with binomial outcomes, which lead to incorrect bounds on plots
- Fixed long running harmless and annoying print bug that confused “t” with “z”
qgcomp v2.5.0
Major changes
- Documentation improvements
- Added
split_data
function to assist with inference from data adaptive procedures (such as qgcomp.partials) and model selection
Minor changes
- Removed “experimental” tags on Poisson family, Zero inflated models
- Added smarter “expnms” default to
predict.qgcompfit
function with new data
qgcomp v2.4.0
Major changes
- Documentation improvements
- Added hurdle models (qgcomp.hurdle.*boot functions), which address the excess in zeroes in a distribution slightly differently from zero inflated models (based on
pscl
package functions.)
Bug fixes
- Package
broom
deprecates a dependency in an upcoming release. This dependency was removed
- Bug with pointwisebound.noboot when non-exposure variables are encoded as factors
- fixed bug in .split.cluster.data function that failed with most ID variable types
- fixed R 4.0.0 bug where MCsize was ignored
- fixed rare bug in hurdle/zi methods with non-quantized exposures, resulted in ridiculous runtimes if not errors
qgcomp v2.3.0
Major changes
- Documentation improvements
- Added ability to perform weighted analysis for glm, survival, and zero inflated objects
- Implement sample splitting to estimate partial effects via
qgcomp.partials
.
Bug fixes
- Fixed bug in print function that missed linear fits
- Fixed visual bug in plots introduced after updating ggplot 3.3.0 (instituted forced update of ggplot2 for users, sorry!)
qgcomp v2.2.2
Major changes
- Documentation improvements
- Added
pointwisebound.boot()
and pointwisebound.noboot()
function to get confidence intervals for pointwise comparisons (e.g. mean outcome at all exposures below first quartile compared to mean outcome at all exposures above the third quartile. Used after qgcomp fits.
- Added support for Poisson link in
qgcomp.boot()
and qgcomp.noboot()
functions to fit quantile g-computation for count data
- Added
generics
and tibble
package dependencies and optional installs of broom
- Added functions to facilitate multiple imputation through the
mice
package.
- Added
weight
parameters to base, zi, and cox (not yet used) in preparation for v2.3.0, which will implement weighting
- Added
vc_comb()
to better calculate covariance matrices.
Bug fixes
- Fixed an error in confidence bounds in plot functions introduced in v2.0.0 (binary outcomes in
qgcomp.boot
).
id
parameter caused intermittent error when used in qgcomp.boot
MCsize
parameter caused intermittent error when used in qgcomp.boot
vcov()
didn’t yield a covariance matrix when applied to qgcomp.*.noboot
objects
qgcomp v2.1.2
Major changes
- Documentation improvements
- Added
qgcomp.zi.boot
function to fit non-linear/non-additive versions of quantile g-computation for zero-inflated Poisson or negative binomial models
- Added two functions to estimate confidence intervals for regression line fits and pointwise comparisons: modelbound.boot, pointwisebound.boot
Bug fixes
- MAJOR: Fixed error in confidence bounds in plot functions introduced in v2.0.0
qgcomp v2.0.0
Major changes
- Documentation improvements
- Added
qgcomp.zi.noboot
function to fit (linear/additive only) versions of quantile g-computation for zero-inflated Poisson or negative binomial models (adds additional dependency on pscl
package)
- Major version change to account for possible breaking of old code in v.1.3.0
Bug fixes
- MAJOR: Fixed error in print function that printed incorrect confidence intervals introduced in v1.3.0
qgcomp v1.3.0
Major changes
- Documentation improvements
- Improved error messages
- Added intercept to main output (this may break some code that depends on qgcomp)
- Added pointwise confidence bounds and better control over plot output for
qgcomp.boot
fits.
Bug fixes
- Fixed fatal error for plotting output of
qgcomp.cox.boot
when model was adjusted for covariates
- Fixed variable typing issue that arose when fitting
qgcomp.boot
with a single exposure variable with non-linear fit
qgcomp v1.2.0
Major changes
- Added bootstrapped version of Cox proportional hazards model, which estimates parameters of a marginal structural Cox model that uses a simulation-based approach to characterize the population average effect of increasing all exposures of interest by one quantile. Survival analysis now available from
qgcomp.cox.boot
and qgcomp.cox.noboot
functions.
- Added (semi-)Bayesian approaches to linear, logistic models via the
arm
package. Available for qgcomp.boot
, qgcomp.noboot
, and qgcomp
functions
- Allow parallel processing of bootstrap variance estimation via the
future
and future.apply
packages
- Added default plotting of survival curves for the
qgcomp.cox.boot
function
- Miscellaneous error checking to improve readability of error messages
Bug fixes
- Better guessing for
qgcomp
function
qgcomp v1.1.0
Major changes
- Added bootstrap covariance matrix to output of qgcomp.boot, which allows plotting of MSM intervals
- Plots now include confidence bands, when appropriate, and offer more control
- Fixed standardization in data
- Added Cox proportional hazards variants of qgcomp models
- Allow tibbles to be used as data objects
Bug fixes
- Fixed issue where MSM fit would default to 4 levels if
q
is unspecified and breaks are user defined (rare, major)
- Fixed error that occurred when a tibble was used as the data object, rather than a data frame (common, minor)
qgcomp v1.0.0
Major changes
- First release on CRAN, benchmark v0.8.14 as release version 1.0
Bug fixes
- v0.8.12: Breaks now properly reported as NULL using
qgcomp.boot
when q = NULL, rather than causing a fatal error (rare, minor)
- v0.8.13: Fixed error if specifying nonlinear fit in
qgcomp.boot
when q = NULL by specifying fixed values for “interventions” and warning users (rare, minor)
- v0.8.14: Documentation fixes for CRAN release
qgcomp v0.8.13
Major changes
Bug fixes
- v0.8.12: Breaks now properly reported as NULL using
qgcomp.boot
when q = NULL, rather than causing a fatal error
- v0.8.13: Fixed error if specifying nonlinear fit in
qgcomp.boot
when q = NULL by specifying fixed values for “interventions” and warning users
qgcomp v0.8.11
Major changes
- Code finalized for release