receptLoss

DOI: 10.18129/B9.bioc.receptLoss  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see receptLoss.

Unsupervised Identification of Genes with Expression Loss in Subsets of Tumors

Bioconductor version: 3.16

receptLoss identifies genes whose expression is lost in subsets of tumors relative to normal tissue. It is particularly well-suited in cases where the number of normal tissue samples is small, as the distribution of gene expression in normal tissue samples is approximated by a Gaussian. Originally designed for identifying nuclear hormone receptor expression loss but can be applied transcriptome wide as well.

Author: Daniel Pique, John Greally, Jessica Mar

Maintainer: Daniel Pique <daniel.pique at med.einstein.yu.edu>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("receptLoss")

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("receptLoss")

 

HTML	R Script	receptLoss
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	GeneExpression, Software, StatisticalMethod
Version	1.10.0
In Bioconductor since	BioC 3.11 (R-4.0) (3 years)
License	GPL-3 + file LICENSE
Depends	R (>= 3.6.0)
Imports	dplyr, ggplot2, magrittr, tidyr, SummarizedExperiment
LinkingTo
Suggests	knitr, rmarkdown, testthat (>= 2.1.0), here
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	receptLoss_1.10.0.tar.gz
Windows Binary	receptLoss_1.10.0.zip
macOS Binary (x86_64)	receptLoss_1.10.0.tgz
macOS Binary (arm64)	receptLoss_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/receptLoss
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/receptLoss
Bioc Package Browser	https://code.bioconductor.org/browse/receptLoss/
Package Short Url	https://bioconductor.org/packages/receptLoss/
Package Downloads Report	Download Stats