deco

DOI: 10.18129/B9.bioc.deco    

This is the development version of deco; to use it, please install the devel version of Bioconductor.

Decomposing Heterogeneous Cohorts using Omic Data Profiling

Bioconductor version: Development (3.9)

This package discovers differential features in hetero- and homogeneous omic data by a two-step method including subsampling LIMMA and NSCA. DECO reveals feature associations to hidden subclasses not exclusively related to higher deregulation levels.

Author: Francisco Jose Campos-Laborie, Jose Manuel Sanchez-Santos and Javier De Las Rivas. Bioinformatics and Functional Genomics Group. Cancer Research Center (CiC-IBMCC, CSIC/USAL). Salamanca. Spain.

Maintainer: Francisco Jose Campos Laborie <fjcamlab at gmail.com>

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

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("deco", version = "3.9")

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("deco")

 

HTML R Script deco
PDF   Reference Manual
Text   NEWS

Details

biocViews Bayesian, BiomedicalInformatics, Clustering, DifferentialExpression, ExonArray, FeatureExtraction, GeneExpression, MicroRNAArray, Microarray, MultipleComparison, Proteomics, RNASeq, Sequencing, Software, Transcription, Transcriptomics, mRNAMicroarray
Version 0.99.45
License GPL (>=3)
Depends R (>= 3.6.0), AnnotationDbi, BiocParallel, SummarizedExperiment
Imports stats, methods, limma, foreign, graphics, BiocStyle, Biobase, cluster, gplots, RColorBrewer, locfit, made4, ade4, sfsmisc, scatterplot3d, gdata, grDevices, utils
LinkingTo
Suggests knitr, curatedTCGAData, MultiAssayExperiment, org.Hs.eg.db
SystemRequirements
Enhances
URL http://bioinfow.dep.usal.es/deco/
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 deco_0.99.45.tar.gz
Windows Binary deco_0.99.45.zip
Mac OS X 10.11 (El Capitan) deco_0.99.45.tgz
Source Repository git clone https://git.bioconductor.org/packages/deco
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/deco
Package Short Url http://bioconductor.org/packages/deco/
Package Downloads Report Download Stats

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