ComBatFamQC: Comprehensive Batch Effect Diagnostics and Harmonization

Provides a comprehensive framework for batch effect diagnostics, harmonization, and post-harmonization downstream analysis. Features include interactive visualization tools, robust statistical tests, and a range of harmonization techniques. Additionally, 'ComBatFamQC' enables the creation of life-span age trend plots with estimated age-adjusted centiles and facilitates the generation of covariate-corrected residuals for analytical purposes. Methods for harmonization are based on approaches described in Johnson et al., (2007) <doi:10.1093/biostatistics/kxj037>, Beer et al., (2020) <doi:10.1016/j.neuroimage.2020.117129>, Pomponio et al., (2020) <doi:10.1016/j.neuroimage.2019.116450>, and Chen et al., (2021) <doi:10.1002/hbm.25688>.

Version:	1.0.4
Depends:	R (≥ 4.1.0)
Imports:	tidyr, dplyr, magrittr, ggplot2, DT, shiny, car, broom, pbkrtest, parallel, Rtsne, MDMR, gamlss, lme4, mgcv, bslib, shinydashboard, methods, gamlss.dist, invgamma, openxlsx
Suggests:	knitr, rmarkdown, devtools, testthat (≥ 3.0.0), remotes, shinytest2, plotly, quarto, spelling, httpuv
Published:	2025-01-25
DOI:	10.32614/CRAN.package.ComBatFamQC
Author:	Zheng Ren [aut, cre, cph], Andrew Chen [aut, cph], Elizabeth Horwath [ctb]
Maintainer:	Zheng Ren <zren1422 at gmail.com>
BugReports:	https://github.com/Zheng206/ComBatFamQC/issues
License:	MIT + file LICENSE
URL:	https://github.com/Zheng206/ComBatFamQC, https://zheng206.github.io/ComBatQC-Web/
NeedsCompilation:	no
Language:	en-US
Materials:	README NEWS
CRAN checks:	ComBatFamQC results

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