DELocal

DOI: 10.18129/B9.bioc.DELocal  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see DELocal.

Identifies differentially expressed genes with respect to other local genes

Bioconductor version: 3.17

The goal of DELocal is to identify DE genes compared to their neighboring genes from the same chromosomal location. It has been shown that genes of related functions are generally very far from each other in the chromosome. DELocal utilzes this information to identify DE genes comparing with their neighbouring genes.

Author: Rishi Das Roy [aut, cre]

Maintainer: Rishi Das Roy <rishi.dasroy at gmail.com>

Installation

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

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

BiocManager::install("DELocal")

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("DELocal")

 

HTML	R Script	DELocal
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DifferentialExpression, GeneExpression, RNASeq, Software, Transcriptomics
Version	1.0.0
In Bioconductor since	BioC 3.17 (R-4.3) (< 6 months)
License	MIT + file LICENSE
Depends
Imports	DESeq2, dplyr, reshape2, limma, SummarizedExperiment, ggplot2, matrixStats, stats
LinkingTo
Suggests	biomaRt, knitr, PCRedux, rmarkdown, stringr
SystemRequirements
Enhances
URL	https://github.com/dasroy/DELocal
BugReports	https://github.com/dasroy/DELocal/issues
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	DELocal_1.0.0.tar.gz
Windows Binary	DELocal_1.0.0.zip
macOS Binary (x86_64)	DELocal_1.0.0.tgz
macOS Binary (arm64)	DELocal_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/DELocal
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/DELocal
Bioc Package Browser	https://code.bioconductor.org/browse/DELocal/
Package Short Url	https://bioconductor.org/packages/DELocal/
Package Downloads Report	Download Stats