gespeR

Gene-Specific Phenotype EstimatoR


Bioconductor version: Release (3.20)

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 "4.4") 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

Details

biocViews CellBasedAssays, GeneTarget, ImmunoOncology, Preprocessing, Regression, Software, Visualization
Version 1.38.0
In Bioconductor since BioC 3.1 (R-3.2) (9.5 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
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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/
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