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This is the development version of Motif2Site; for the stable release version, see Motif2Site.

Detect binding sites from motifs and ChIP-seq experiments, and compare binding sites across conditions

Bioconductor version: Development (3.20)

Detect binding sites using motifs IUPAC sequence or bed coordinates and ChIP-seq experiments in bed or bam format. Combine/compare binding sites across experiments, tissues, or conditions. All normalization and differential steps are done using TMM-GLM method. Signal decomposition is done by setting motifs as the centers of the mixture of normal distribution curves.

Author: Peyman Zarrineh [cre, aut]

Maintainer: Peyman Zarrineh <peyman.zarrineh at>

Citation (from within R, enter citation("Motif2Site")):


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:

Motif2Site HTML R Script
Reference Manual PDF


biocViews ChIPSeq, DifferentialPeakCalling, Epigenetics, SequenceMatching, Sequencing, Software
Version 1.9.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License GPL-2
Depends R (>= 4.1)
Imports S4Vectors, stats, utils, methods, grDevices, graphics, BiocGenerics, BSgenome, GenomeInfoDb, MASS, IRanges, GenomicRanges, Biostrings, GenomicAlignments, edgeR, mixtools
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Follow Installation instructions to use this package in your R session.

Source Package Motif2Site_1.9.0.tar.gz
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macOS Binary (x86_64) Motif2Site_1.9.0.tgz
macOS Binary (arm64) Motif2Site_1.9.0.tgz
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