Package: vachette 0.40.0

James Craig

vachette: A Method for Visualization of Pharmacometric Models

A method to visualize pharmacometric analyses which are impacted by covariate effects. Variability-Aligned Covariate Harmonized-Effects and Time-Transformation Equivalent (VACHETTE) facilitates intuitive overlays of data and model predictions, allowing for comprehensive comparison without dilution effects. VACHETTE improves upon previous methods Lommerse et al. (2021) <doi:10.1002/psp4.12679>, enabling its application to all pharmacometric models and enhancing Visual Predictive Checks (VPC) by integrating data into cohesive plots that can highlight model misspecification.

Authors:Jos Lommerse [aut], Anna Largajolli [aut], James Craig [aut, cre], Nele Mueller-Plock [ctb], Jeff Sachs [ctb], Amy Cheung [ctb], Certara USA, Inc. [cph, fnd]

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vachette.pdf |vachette.html✨
vachette/json (API)

# Install 'vachette' in R:

install.packages('vachette', repos = c('https://certara.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/certara/vachette/issues

On CRAN:

15 exports 1 stars 1.31 score 90 dependencies 7 scripts

Last updated 19 days agofrom:106659b79b. Checks:OK: 5 ERROR: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 10 2024
R-4.5-win	OK	Sep 10 2024
R-4.5-linux	OK	Sep 10 2024
R-4.4-win	OK	Sep 10 2024
R-4.4-mac	ERROR	Sep 10 2024
R-4.3-win	OK	Sep 10 2024
R-4.3-mac	ERROR	Sep 10 2024

Exports:apply_transformations p.add.distances p.obs.cov p.obs.excluded p.obs.ref.query p.prop.distances p.scaled.observation.curves p.scaled.observation.curves.by.id p.scaled.typical.curves p.scaled.typical.curves.landmarks p.scaled.typical.full.curves.landmarks p.scaling.factor p.vachette p.vachette.arrow vachette_data

Dependencies:backports base64enc bslib cachem checkmate cli cluster codetools colorspace cpp11 crayon data.table digest dplyr evaluate fansi farver fastmap fontawesome foreach foreign Formula fs generics ggplot2 glue gridExtra gtable highr Hmisc hms htmlTable htmltools htmlwidgets isoband iterators jquerylib jsonlite knitr labeling lattice lifecycle lubridate magrittr MASS mathjaxr Matrix memoise mgcv mime minpack.lm munsell nlme nnet photobiology pillar pkgconfig plyr polynom prettyunits progress prospectr purrr R6 rappdirs RColorBrewer Rcpp RcppArmadillo rlang rmarkdown rpart rstudioapi sass scales splus2R stringi stringr tibble tidyr tidyselect timechange tinytex utf8 vctrs viridis viridisLite withr xfun yaml zoo

Help page	Topics
Apply vachette transformations	apply_transformations apply_transformations.vachette_data
Plot Distances Before and After 'vachette' Transformation Assuming Additive Error Model	p.add.distances
Plot Observations and Typical Curves Faceted by Covariate	p.obs.cov
Plot Excluded Observations with Reasons for Exclusion	p.obs.excluded
Plot Observations and Typical Curves for Query and Reference Data	p.obs.ref.query
Plot Distances Before and After 'vachette' Transformation Assuming Proportional Error Model	p.prop.distances
Plot 'vachette' Transformed Observation Curves	p.scaled.observation.curves
Plot 'vachette' Transformed Observation Curves by Individual	p.scaled.observation.curves.by.id
Plot 'vachette' Transformed Typical Curves	p.scaled.typical.curves
Plot 'vachette' Transformed Typical Curves with Landmarks	p.scaled.typical.curves.landmarks
Plot Full 'vachette' Transformed Typical Curves with Landmarks	p.scaled.typical.full.curves.landmarks
Plot Scaling Factors for Typical Curves	p.scaling.factor
Main Vachette Plot	p.vachette
Plot Observations and 'vachette' Transformed Observations with Connecting Arrows	p.vachette.arrow
Print 'vachette_data'	print.vachette_data
Summarise 'vachette_data'	summary.vachette_data
Initialize vachette object with required data	vachette_data

Package: vachette 0.40.0

vachette: A Method for Visualization of Pharmacometric Models

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