transite
RNA-binding protein motif analysis
Bioconductor version: 3.23 · Package version: 1.30.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("transite")Details
| Maintainer | Konstantin Krismer <krismer@mit.edu> |
| Author | Konstantin Krismer [aut, cre, cph] (ORCID: <https://orcid.org/0000-0001-8994-3416>), Anna Gattinger [aut] (ORCID: <https://orcid.org/0000-0001-7094-9279>), Michael Yaffe [ths, cph] (ORCID: <https://orcid.org/0000-0002-9547-3251>), Ian Cannell [ths] (ORCID: <https://orcid.org/0000-0001-5832-9210>) |
| License | MIT + file LICENSE |
| URL | https://transite.mit.edu |
| System Requirements | C++11 |
| Downloads rank | 275 |
| Source branch | RELEASE_3_23 |
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, Genetics, Microarray, Software, Transcription, mRNAMicroarray |
Documentation
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Dependencies
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), stringr (>= 1.5.1), utils
LinkingTo: Rcpp (>= 1.0.4.8)
Suggests: knitr (>= 1.20), rmarkdown (>= 1.10), roxygen2 (>= 6.1.0), testthat (>= 2.1.0)