DOI: 10.18129/B9.bioc.aggregateBioVar  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see aggregateBioVar.

Differential Gene Expression Analysis for Multi-subject scRNA-seq

Bioconductor version: 3.16

For single cell RNA-seq data collected from more than one subject (e.g. biological sample or technical replicates), this package contains tools to summarize single cell gene expression profiles at the level of subject. A SingleCellExperiment object is taken as input and converted to a list of SummarizedExperiment objects, where each list element corresponds to an assigned cell type. The SummarizedExperiment objects contain aggregate gene-by-subject count matrices and inter-subject column metadata for individual subjects that can be processed using downstream bulk RNA-seq tools.

Author: Jason Ratcliff [aut, cre] , Andrew Thurman [aut], Michael Chimenti [ctb], Alejandro Pezzulo [ctb]

Maintainer: Jason Ratcliff <jason-ratcliff at>

Citation (from within R, enter citation("aggregateBioVar")):


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biocViews DifferentialExpression, GeneExpression, RNASeq, SingleCell, Software, Transcription, Transcriptomics
Version 1.8.0
In Bioconductor since BioC 3.12 (R-4.0) (2.5 years)
License GPL-3
Depends R (>= 4.0)
Imports stats, methods, S4Vectors, SummarizedExperiment, SingleCellExperiment, Matrix, tibble, rlang
Suggests BiocStyle, magick, knitr, rmarkdown, testthat, BiocGenerics, DESeq2, magrittr, dplyr, ggplot2, cowplot, ggtext, RColorBrewer, pheatmap, viridis
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