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Comparative analysis of RNA-seq data for hybrids and their progenitors

Bioconductor version: Release (3.19)

HybridExpress can be used to perform comparative transcriptomics analysis of hybrids (or allopolyploids) relative to their progenitor species. The package features functions to perform exploratory analyses of sample grouping, identify differentially expressed genes in hybrids relative to their progenitors, classify genes in expression categories (N = 12) and classes (N = 5), and perform functional analyses. We also provide users with graphical functions for the seamless creation of publication-ready figures that are commonly used in the literature.

Author: Fabricio Almeida-Silva [aut, cre] , Lucas Prost-Boxoen [aut] , Yves Van de Peer [aut]

Maintainer: Fabricio Almeida-Silva <fabricio_almeidasilva at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Comparative transcriptomic analysis of hybrids and their progenitors HTML R Script
Reference Manual PDF


biocViews Classification, DifferentialExpression, FunctionalGenomics, GeneExpression, RNASeq, Software, Transcriptomics
Version 1.0.0
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License GPL-3
Depends R (>= 4.3.0)
Imports ggplot2, patchwork, rlang, DESeq2, SummarizedExperiment, stats, methods, RColorBrewer, ComplexHeatmap, grDevices, BiocParallel
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Source Package HybridExpress_1.0.0.tar.gz
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macOS Binary (x86_64) HybridExpress_1.0.0.tgz
macOS Binary (arm64) HybridExpress_1.0.0.tgz
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