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Bioconductor - transite

transite

This is the released version of transite; for the devel version, see transite.

RNA-binding protein motif analysis

Bioconductor version: Release (3.21)

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] ORCID: 0000-0001-8994-3416 , Anna Gattinger [aut] ORCID: 0000-0001-7094-9279 , Michael Yaffe [ths, cph] ORCID: 0000-0002-9547-3251 , Ian Cannell [ths] ORCID: 0000-0001-5832-9210

Maintainer: Konstantin Krismer <krismer at mit.edu>

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

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("transite")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("transite")
Details biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Genetics, Microarray, Software, Transcription, mRNAMicroarray Version 1.26.0 In Bioconductor since BioC 3.8 (R-3.5) (6.5 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 (>= 1.0.4.8), scales (>= 1.0.0), stats, TFMPvalue (>= 0.0.8), utils System Requirements C++11 URL https://transite.mit.edu See More Package Archives

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

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