RPBC
This is the development version of RPBC; to use it, please install the devel version of Bioconductor.
Region-Preserving Batch Correction for Paired Region-Resolved Single-Cell Data
Bioconductor version: Development (3.24)
Implements Region-Preserving Batch Correction (RPBC), an empirical-Bayes location-scale framework for paired region-resolved single-cell and spatial-omics data. RPBC preserves a patient-balanced population-average regional contrast while harmonizing patient-wide location shifts, patient-specific regional deviations, and patient-region scale heterogeneity. The package also provides Adaptive RPBC for group-size-dependent stabilization of patient-region scale variation and covariate-adjusted RPBC for preserving prespecified patient-level covariate-associated variation during harmonization. RPBC is designed to interoperate with Bioconductor data structures for single-cell and spatial experiments.
Author: Elizabeth B. Amona [aut, cre] 
Maintainer: Elizabeth B. Amona <amonaelizabeth1 at gmail.com>
citation("RPBC")):Elizabeth B. Amona. RPBC: Region-Preserving Batch Correction for Paired Region-Resolved Single-Cell Data. doi:10.18129/B9.bioc.RPBC, R package version 0.99.1, https://bioconductor.org/packages/RPBC.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("RPBC")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RPBC")| RPBC: Region-Preserving Batch Correction | HTML | R Script |
| Reference Manual |
Details
| biocViews | BatchEffect, Preprocessing, SingleCell, Software, Spatial, StatisticalMethod |
| Version | 0.99.1 |
| In Bioconductor since | BioC 3.24 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5.0) |
| Imports | matrixStats, SingleCellExperiment, SpatialExperiment, SummarizedExperiment |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | RPBC_0.99.1.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/RPBC |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RPBC |
| Package Short Url | https://bioconductor.org/packages/RPBC/ |
| Package Downloads Report | Download Stats |