DOI: 10.18129/B9.bioc.scanMiR    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see scanMiR.


Bioconductor version: 3.14

A set of tools for working with miRNA affinity models (KdModels), efficiently scanning for miRNA binding sites, and predicting target repression. It supports scanning using miRNA seeds, full miRNA sequences (enabling 3' alignment) and KdModels, and includes the prediction of slicing and TDMD sites. Finally, it includes utility and plotting functions (e.g. for the visual representation of miRNA-target alignment).

Author: Pierre-Luc Germain [aut] , Michael Soutschek [aut], Fridolin Gross [cre, aut]

Maintainer: Fridolin Gross <fridolin.gross at>

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


To install this package, start R (version "4.1") 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:



HTML R Script 1_scanning
HTML R Script 2_Kdmodels
PDF   Reference Manual
Text   NEWS


biocViews Alignment, SequenceMatching, Software, miRNA
Version 1.0.0
In Bioconductor since BioC 3.14 (R-4.1) (< 6 months)
License GPL-3
Depends R (>= 4.0)
Imports Biostrings, GenomicRanges, IRanges, data.table, BiocParallel, methods, GenomeInfoDb, S4Vectors, ggplot2, stats, stringi, utils, graphics, grid, gridExtra, seqLogo
Suggests knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0)
Depends On Me
Imports Me scanMiRApp, scanMiRData
Suggests Me
Links To Me
Build Report  

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Source Package scanMiR_1.0.0.tar.gz
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macOS 10.13 (High Sierra) scanMiR_1.0.0.tgz
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