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Perform key tests for binding motifs in sequence data

Bioconductor version: Release (3.19)

Taking a set of sequence motifs as PWMs, test a set of sequences for over-representation of these motifs, as well as any positional features within the set of motifs. Enrichment analysis can be undertaken using multiple statistical approaches. The package also contains core functions to prepare data for analysis, and to visualise results.

Author: Stevie Pederson [aut, cre]

Maintainer: Stevie Pederson < at>

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


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:

Motif Analysis Using motifTestR HTML R Script
Reference Manual PDF


biocViews ChIPSeq, ChipOnChip, MotifAnnotation, SequenceMatching, Software
Version 1.0.3
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License GPL-3
Depends Biostrings, GenomicRanges, ggplot2 (>= 3.5.0), R (>= 4.3.0)
Imports GenomeInfoDb, harmonicmeanp, IRanges, matrixStats, methods, parallel, patchwork, rlang, S4Vectors, stats, universalmotif
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Suggests AnnotationHub, BiocStyle, BSgenome.Hsapiens.UCSC.hg19, extraChIPs, ggdendro, knitr, MotifDb, rmarkdown, rtracklayer, testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package motifTestR_1.0.3.tar.gz
Windows Binary
macOS Binary (x86_64) motifTestR_1.0.3.tgz
macOS Binary (arm64) motifTestR_1.0.3.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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