BatChef is an R package that:
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implements a variety of correction methods;
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provides quantitative metrics to evaluate the performance of the correction methods, including the Wasserstein distance, Local Inverse Simpson's Index (LISI), Average Silhouette Width (ASW), and Adjusted Rand Index (ARI);
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can be used as a guideline to identify the most appropriate batch effects correction method based on data-specific characteristics.
# install.packages("devtools")
devtools::install_github("zuinelena3/BatChef")