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AffiXcan

A Functional Approach To Impute Genetically Regulated Expression

Bioconductor version: Release (3.17)

Impute a GReX (Genetically Regulated Expression) for a set of genes in a sample of individuals, using a method based on the Total Binding Affinity (TBA). Statistical models to impute GReX can be trained with a training dataset where the real total expression values are known.

Author: Alessandro Lussana [aut, cre]

Maintainer: Alessandro Lussana <alessandro.lussana at protonmail.com>

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

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("AffiXcan")

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("AffiXcan")
AffiXcan HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DimensionReduction, GeneExpression, GeneRegulation, PrincipalComponent, Regression, Software, Transcription
Version 1.18.0
In Bioconductor since BioC 3.8 (R-3.5) (5 years)
License GPL-3
Depends R (>= 3.6), SummarizedExperiment
Imports MultiAssayExperiment, BiocParallel, crayon
Linking To
Suggests BiocStyle, knitr, rmarkdown
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Package Archives

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

Source Package AffiXcan_1.18.0.tar.gz
Windows Binary AffiXcan_1.18.0.zip
macOS Binary (x86_64) AffiXcan_1.18.0.tgz
macOS Binary (arm64) AffiXcan_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/AffiXcan
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/AffiXcan
Bioc Package Browser https://code.bioconductor.org/browse/AffiXcan/
Package Short Url https://bioconductor.org/packages/AffiXcan/
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