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designit: Blocking and Randomization for Experimental Design

Intelligently assign samples to batches in order to reduce batch effects. Batch effects can have a significant impact on data analysis, especially when the assignment of samples to batches coincides with the contrast groups being studied. By defining a batch container and a scoring function that reflects the contrasts, this package allows users to assign samples in a way that minimizes the potential impact of batch effects on the comparison of interest. Among other functionality, we provide an implementation for OSAT score by Yan et al. (2012, <doi:10.1186/1471-2164-13-689>).

Version: 0.5.0
Depends: R (≥ 4.1.0)
Imports: rlang (≥ 0.4.0), dplyr (≥ 1.0.0), purrr, ggplot2, scales, tibble, tidyr, assertthat, stringr, R6, data.table, stats
Suggests: testthat, roxygen2, pkgdown, knitr, markdown, rmarkdown, gt, bench, OSAT, tidyverse, printr, devtools (≥ 2.0.0), ggpattern, cowplot, bestNormalize, here
Published: 2024-03-21
DOI: 10.32614/CRAN.package.designit
Author: Iakov I. Davydov ORCID iD [aut, cre, cph], Juliane Siebourg-Polster ORCID iD [aut, cph], Guido Steiner [aut, cph], Konrad Rudolph ORCID iD [ctb], Jitao David Zhang ORCID iD [aut, cph], Balazs Banfai ORCID iD [aut, cph], F. Hoffman-La Roche [cph, fnd]
Maintainer: Iakov I. Davydov <iakov.davydov at roche.com>
BugReports: https://github.com/BEDApub/designit/issues
License: MIT + file LICENSE
URL: https://bedapub.github.io/designit/, https://github.com/BEDApub/designit/
NeedsCompilation: no
Materials: README NEWS
CRAN checks: designit results

Documentation:

Reference manual: designit.pdf
Vignettes: Basic example
Using custom shuffle schedule
In-vivo study design
designit: a flexible engine to generate experiment layouts
Nested dimension example
Optimizer examples
OSAT and scoring functions
Plate layouts
Shuffling with constraints

Downloads:

Package source: designit_0.5.0.tar.gz
Windows binaries: r-devel: designit_0.5.0.zip, r-release: designit_0.5.0.zip, r-oldrel: designit_0.5.0.zip
macOS binaries: r-release (arm64): designit_0.5.0.tgz, r-oldrel (arm64): designit_0.5.0.tgz, r-release (x86_64): designit_0.5.0.tgz, r-oldrel (x86_64): designit_0.5.0.tgz

Linking:

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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.