gespeR

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.21 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see gespeR.

Gene-Specific Phenotype EstimatoR

Bioconductor version: Release (3.21)

Estimates gene-specific phenotypes from off-target confounded RNAi screens. The phenotype of each siRNA is modeled based on on-targeted and off-targeted genes, using a regularized linear regression model.

Author: Fabian Schmich

Maintainer: Fabian Schmich <fabian.schmich at bsse.ethz.ch>

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

Installation

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


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

BiocManager::install("gespeR")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CellBasedAssays, GeneTarget, ImmunoOncology, Preprocessing, Regression, Software, Visualization
Version	1.40.0
In Bioconductor since	BioC 3.1 (R-3.2) (10.5 years)
License	GPL-3
Depends	methods, graphics, ggplot2, R (>= 2.10)
Imports	Matrix, glmnet, cellHTS2, Biobase, biomaRt, doParallel, parallel, foreach, reshape2, dplyr
System Requirements
URL	http://www.cbg.ethz.ch/software/gespeR

Suggests	knitr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/gespeR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gespeR
Package Short Url	https://bioconductor.org/packages/gespeR/
Package Downloads Report	Download Stats