Registration Open for Bioc2024 July 24-26


Rapid benchmarking of methods for *in silico* deconvolution of bulk RNA-seq data

Bioconductor version: Release (3.19)

granulator is an R package for the cell type deconvolution of heterogeneous tissues based on bulk RNA-seq data or single cell RNA-seq expression profiles. The package provides a unified testing interface to rapidly run and benchmark multiple state-of-the-art deconvolution methods. Data for the deconvolution of peripheral blood mononuclear cells (PBMCs) into individual immune cell types is provided as well.

Author: Sabina Pfister [aut, cre], Vincent Kuettel [aut], Enrico Ferrero [aut]

Maintainer: Sabina Pfister <sabina.pfister at>

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


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:

Deconvoluting bulk RNA-seq data with granulator HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, GeneExpression, RNASeq, Regression, SingleCell, Software, StatisticalMethod, Transcriptomics
Version 1.12.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Depends R (>= 4.1)
Imports cowplot, e1071, epiR, dplyr, dtangle, ggplot2, ggplotify, grDevices, limSolve, magrittr, MASS, nnls, parallel, pheatmap, purrr, rlang, stats, tibble, tidyr, utils
System Requirements
Bug Reports
See More
Suggests BiocStyle, knitr, rmarkdown, testthat
Linking To
Depends On Me
Imports Me
Suggests Me deconvR
Links To Me
Build Report Build Report

Package Archives

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

Source Package granulator_1.12.0.tar.gz
Windows Binary
macOS Binary (x86_64) granulator_1.12.0.tgz
macOS Binary (arm64) granulator_1.12.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats