Registration Open for Bioc2024
Early registration discount pricing ends May 31!


Binding site defintion based on iCLIP data

Bioconductor version: Release (3.19)

Precise knowledge on the binding sites of an RNA-binding protein (RBP) is key to understand (post-) transcriptional regulatory processes. Here we present a workflow that describes how exact binding sites can be defined from iCLIP data. The package provides functions for binding site definition and result visualization. For details please see the vignette.

Author: Mirko Br├╝ggemann [aut, cre] , Kathi Zarnack [aut]

Maintainer: Mirko Br├╝ggemann <mirko.brueggemann at>

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


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:

Definition of binding sites from iCLIP signal HTML R Script
Reference Manual PDF


biocViews Coverage, DataImport, FunctionalGenomics, GeneExpression, GeneRegulation, Sequencing, Software
Version 2.2.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License Artistic-2.0
Depends GenomicRanges, R (>= 4.2)
Imports tidyr, tibble, plyr, matrixStats, stats, ggplot2, methods, rtracklayer, S4Vectors, ggforce, GenomeInfoDb, ComplexHeatmap, RColorBrewer, lifecycle, rlang, forcats, dplyr, GenomicFeatures, IRanges, kableExtra, ggdist
System Requirements
Bug Reports
See More
Suggests testthat, BiocStyle, knitr, rmarkdown, GenomicAlignments, scales, Gviz, xlsx, GGally, patchwork, viridis, ggplotify, SummarizedExperiment, DESeq2, ggpointdensity, ggrastr, ashr
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BindingSiteFinder_2.2.0.tar.gz
Windows Binary
macOS Binary (x86_64) BindingSiteFinder_2.2.0.tgz
macOS Binary (arm64) BindingSiteFinder_2.2.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats