scsR

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see scsR.

SiRNA correction for seed mediated off-target effect


Bioconductor version: 3.9

Corrects genome-wide siRNA screens for seed mediated off-target effect. Suitable functions to identify the effective seeds/miRNAs and to visualize their effect are also provided in the package.

Author: Andrea Franceschini

Maintainer: Andrea Franceschini <andrea.franceschini at isb-sib.ch>, Roger Meier <roger.meier at lmsc.ethz.ch>, Christian von Mering <mering at imls.uzh.ch>

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

Installation

To install this package, start R (version "3.6") and enter:


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

BiocManager::install("scsR")

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("scsR")
scsR Vignette PDF R Script
Reference Manual PDF

Details

biocViews Preprocessing, Software
Version 1.20.0
In Bioconductor since BioC 2.14 (R-3.1) (10 years)
License GPL-2
Depends R (>= 2.14.0), STRINGdb, methods, BiocGenerics, Biostrings, IRanges, plyr, tcltk
Imports sqldf, hash, ggplot2, graphics, grDevices, RColorBrewer
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Package Archives

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

Source Package scsR_1.20.0.tar.gz
Windows Binary scsR_1.20.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) scsR_1.20.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/scsR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scsR
Bioc Package Browser https://code.bioconductor.org/browse/scsR/
Package Short Url https://bioconductor.org/packages/scsR/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive