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Outlier Analysis for pairwise differential comparison

Bioconductor version: Release (3.19)

Blacksheep is a tool designed for outlier analysis in the context of pairwise comparisons in an effort to find distinguishing characteristics from two groups. This tool was designed to be applied for biological applications such as phosphoproteomics or transcriptomics, but it can be used for any data that can be represented by a 2D table, and has two sub populations within the table to compare.

Author: MacIntosh Cornwell [aut], RugglesLab [cre]

Maintainer: RugglesLab <ruggleslab at>

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


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:

Outlier Analysis using blacksheepr - Phosphoprotein HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, GeneExpression, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version 1.18.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License MIT + file LICENSE
Depends R (>= 3.6)
Imports grid, stats, grDevices, utils, circlize, viridis, RColorBrewer, ComplexHeatmap, SummarizedExperiment, pasilla
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Suggests testthat (>= 2.1.0), knitr, BiocStyle, rmarkdown, curl
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Follow Installation instructions to use this package in your R session.

Source Package blacksheepr_1.18.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) blacksheepr_1.18.0.tgz
macOS Binary (arm64) blacksheepr_1.18.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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