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This is the development version of blacksheepr; for the stable release version, see blacksheepr.

Outlier Analysis for pairwise differential comparison

Bioconductor version: Development (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 gmail.com>

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


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

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

# The following initializes usage of Bioc devel


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 1.17.0
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
System Requirements
Bug Reports https://github.com/ruggleslab/blacksheepr/issues
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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_1.17.0.tar.gz
Windows Binary blacksheepr_1.17.0.zip
macOS Binary (x86_64) blacksheepr_1.17.0.tgz
macOS Binary (arm64) blacksheepr_1.17.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/blacksheepr
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/blacksheepr
Bioc Package Browser https://code.bioconductor.org/browse/blacksheepr/
Package Short Url https://bioconductor.org/packages/blacksheepr/
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