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

RNA-binding protein motif analysis

Bioconductor version: Development (3.20)

transite is a computational method that allows comprehensive analysis of the regulatory role of RNA-binding proteins in various cellular processes by leveraging preexisting gene expression data and current knowledge of binding preferences of RNA-binding proteins.

Author: Konstantin Krismer [aut, cre, cph] , Anna Gattinger [aut] , Michael Yaffe [ths, cph] , Ian Cannell [ths]

Maintainer: Konstantin Krismer <krismer at>

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


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:

Spectrum Motif Analysis (SPMA) HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Genetics, Microarray, Software, Transcription, mRNAMicroarray
Version 1.23.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License MIT + file LICENSE
Depends R (>= 3.5)
Imports BiocGenerics(>= 0.26.0), Biostrings(>= 2.48.0), dplyr (>= 0.7.6), GenomicRanges(>= 1.32.6), ggplot2 (>= 3.0.0), grDevices, gridExtra (>= 2.3), methods, parallel, Rcpp (>=, scales (>= 1.0.0), stats, TFMPvalue (>= 0.0.8), utils
System Requirements C++11
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Suggests knitr (>= 1.20), rmarkdown (>= 1.10), roxygen2 (>= 6.1.0), testthat (>= 2.1.0)
Linking To Rcpp (>=
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Follow Installation instructions to use this package in your R session.

Source Package transite_1.23.0.tar.gz
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