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

Plot stacked logos for single or multiple DNA, RNA and amino acid sequence

Bioconductor version: Development (3.20)

The motifStack package is designed for graphic representation of multiple motifs with different similarity scores. It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors.

Author: Jianhong Ou, Michael Brodsky, Scot Wolfe and Lihua Julie Zhu

Maintainer: Jianhong Ou <jianhong.ou at>

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


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:

motifStack Vignette HTML R Script
Reference Manual PDF


biocViews Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Software, Visualization
Version 1.49.1
In Bioconductor since BioC 2.11 (R-2.15) (12 years)
License GPL (>= 2)
Depends R (>= 2.15.1), methods, grid
Imports ade4, Biostrings, ggplot2, grDevices, graphics, htmlwidgets, stats, stats4, utils, XML, TFBSTools
System Requirements
See More
Suggests Cairo, grImport, grImport2, BiocGenerics, MotifDb, RColorBrewer, BiocStyle, knitr, RUnit, rmarkdown, JASPAR2020
Linking To
Depends On Me generegulation
Imports Me ATACseqQC, atSNP, dagLogo, motifbreakR, ribosomeProfilingQC, TCGAWorkflow
Suggests Me ChIPpeakAnno, TFutils, trackViewer, tripr, universalmotif
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package motifStack_1.49.1.tar.gz
Windows Binary
macOS Binary (x86_64) motifStack_1.49.1.tgz
macOS Binary (arm64)
Source Repository git clone
Source Repository (Developer Access) git clone
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