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ModCon

Modifying splice site usage by changing the mRNP code, while maintaining the genetic code


Bioconductor version: Release (3.19)

Collection of functions to calculate a nucleotide sequence surrounding for splice donors sites to either activate or repress donor usage. The proposed alternative nucleotide sequence encodes the same amino acid and could be applied e.g. in reporter systems to silence or activate cryptic splice donor sites.

Author: Johannes Ptok [aut, cre]

Maintainer: Johannes Ptok <Johannes.Ptok at posteo.de>

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

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("ModCon")

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("ModCon")
Designing SD context with ModCon HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews AlternativeSplicing, FunctionalGenomics, Software
Version 1.12.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3 + file LICENSE
Depends data.table, parallel, utils, stats, R (>= 4.1)
Imports
System Requirements Perl
URL https://github.com/caggtaagtat/ModCon
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Suggests testthat, knitr, rmarkdown, dplyr, shinycssloaders, shiny, shinyFiles, shinydashboard, shinyjs
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Package Archives

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

Source Package ModCon_1.12.0.tar.gz
Windows Binary ModCon_1.12.0.zip
macOS Binary (x86_64) ModCon_1.12.0.tgz
macOS Binary (arm64) ModCon_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ModCon
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ModCon
Bioc Package Browser https://code.bioconductor.org/browse/ModCon/
Package Short Url https://bioconductor.org/packages/ModCon/
Package Downloads Report Download Stats