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Brings transcriptomics to the tidyverse

Bioconductor version: Release (3.18)

This is a collection of utility functions that allow to perform exploration of and calculations to RNA sequencing data, in a modular, pipe-friendly and tidy fashion.

Author: Stefano Mangiola [aut, cre], Maria Doyle [ctb]

Maintainer: Stefano Mangiola <mangiolastefano at gmail.com>

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


To install this package, start R (version "4.3") 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:

Overview of the tidybulk package HTML R Script
Reference Manual PDF


biocViews AssayDomain, Clustering, DifferentialExpression, GeneExpression, Infrastructure, Normalization, QualityControl, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version 1.14.3
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License GPL-3
Depends R (>= 4.1.0), ttservice (>= 0.3.6)
Imports tibble, readr, dplyr (>= 1.1.0), magrittr, tidyr, stringi, stringr, rlang, purrr, tidyselect, preprocessCore, stats, parallel, utils, lifecycle, scales, SummarizedExperiment, GenomicRanges, methods, S4Vectors, crayon, Matrix
System Requirements
URL https://github.com/stemangiola/tidybulk
Bug Reports https://github.com/stemangiola/tidybulk/issues
See More
Suggests BiocStyle, testthat, vctrs, AnnotationDbi, BiocManager, Rsubread, e1071, edgeR, limma, org.Hs.eg.db, org.Mm.eg.db, sva, GGally, knitr, qpdf, covr, Seurat, KernSmooth, Rtsne, ggplot2, widyr, clusterProfiler, msigdbr, DESeq2, broom, survival, boot, betareg, tidyHeatmap, pasilla, ggrepel, devtools, functional, survminer, tidySummarizedExperiment, markdown, uwot, matrixStats, igraph, EGSEA, IRanges, here, glmmSeq, pbapply, pbmcapply, lme4, glmmTMB, MASS, pkgconfig
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package tidybulk_1.14.3.tar.gz
Windows Binary tidybulk_1.14.3.zip
macOS Binary (x86_64) tidybulk_1.14.3.tgz
macOS Binary (arm64) tidybulk_1.14.3.tgz
Source Repository git clone https://git.bioconductor.org/packages/tidybulk
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/tidybulk
Bioc Package Browser https://code.bioconductor.org/browse/tidybulk/
Package Short Url https://bioconductor.org/packages/tidybulk/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.18 Source Archive