consensusDE

DOI:10.18129/B9.bioc.consensusDE

This is thedevelopmentversion of consensusDE; for the stable release version, seeconsensusDE.

RNA-seq analysis using multiple algorithms

Bioconductor version: Development (3.16)

This package allows users to perform DE analysis using multiple algorithms. It seeks consensus from multiple methods. Currently it supports "Voom", "EdgeR" and "DESeq". It uses RUV-seq (optional) to remove unwanted sources of variation.

Author: Ashley J. Waardenberg [aut, cre], Martha M. Cooper [ctb]

Maintainer: Ashley J. Waardenberg

Installation

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

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("consensusDE")

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

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("consensusDE")

HTML	R Script	consensusDE
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering,MultipleComparison,Sequencing,Software,Transcriptomics
Version	1.15.0
In Bioconductor since	BioC 3.8 (R-3.5) (3.5 years)
License	GPL-3
Depends	R (>= 3.5),BiocGenerics
Imports	airway,AnnotationDbi,BiocParallel,Biobase,Biostrings,data.table,dendextend,DESeq2(>= 1.20.0),EDASeq,ensembldb,edgeR, EnsDb.Hsapiens.v86,GenomicAlignments,GenomicFeatures,limma, org.Hs.eg.db,pcaMethods,RColorBrewer,Rsamtools,RUVSeq,S4Vectors, stats,SummarizedExperiment, TxDb.Dmelanogaster.UCSC.dm3.ensGene, utils
LinkingTo
Suggests	knitr,rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	consensusDE_1.15.0.tar.gz
Windows Binary	consensusDE_1.15.0.zip
macOS 10.13 (High Sierra)	consensusDE_1.15.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/consensusDE
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/consensusDE
Package Short Url	//www.andersvercelli.com/packages/consensusDE/
Package Downloads Report	Download Stats