DOI: 10.18129/B9.bioc.transite    

RNA-binding protein motif analysis

Bioconductor version: Release (3.8)

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 and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("transite", version = "3.8")


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Spectrum Motif Analysis (SPMA)
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biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Genetics, Microarray, Software, Transcription, mRNAMicroarray
Version 1.0.1
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), ggseqlogo (>= 0.1), gridExtra (>= 2.3), methods, parallel, Rcpp (>= 0.12.18), scales (>= 1.0.0), stats, TFMPvalue (>= 0.0.8), utils
LinkingTo Rcpp (>= 0.12.18)
Suggests knitr (>= 1.20), rmarkdown (>= 1.10), roxygen2 (>= 6.1.0)
SystemRequirements C++11
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