consICA

DOI: 10.18129/B9.bioc.consICA  

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

consensus Independent Component Analysis

Bioconductor version: 3.16

consICA implements a data-driven deconvolution method – consensus independent component analysis (ICA) to decompose heterogeneous omics data and extract features suitable for patient diagnostics and prognostics. The method separates biologically relevant transcriptional signals from technical effects and provides information about the cellular composition and biological processes. The implementation of parallel computing in the package ensures efficient analysis of modern multicore systems.

Author: Petr V. Nazarov [aut, cre] , Tony Kaoma [aut] , Maryna Chepeleva [aut]

Maintainer: Petr V. Nazarov <petr.nazarov at lih.lu>

Installation

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

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

BiocManager::install("consICA")

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("consICA")

 

HTML	R Script	The consICA package: User’s manual
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Classification, FeatureExtraction, RNASeq, Sequencing, Software, StatisticalMethod, Technology, Transcriptomics
Version	1.0.0
In Bioconductor since	BioC 3.16 (R-4.2) (< 6 months)
License	MIT + file LICENSE
Depends	R (>= 4.2.0)
Imports	fastICA (>= 1.2.1), sm, org.Hs.eg.db, GO.db, stats, SummarizedExperiment, BiocParallel, graph, methods, pheatmap, survival, topGO, graphics, grDevices
LinkingTo
Suggests	knitr, BiocStyle, rmarkdown, testthat
SystemRequirements
Enhances
URL
BugReports	https://github.com/biomod-lih/consICA/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	consICA_1.0.0.tar.gz
Windows Binary	consICA_1.0.0.zip
macOS Binary (x86_64)	consICA_1.0.0.tgz
macOS Binary (arm64)	consICA_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/consICA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/consICA
Bioc Package Browser	https://code.bioconductor.org/browse/consICA/
Package Short Url	https://bioconductor.org/packages/consICA/
Package Downloads Report	Download Stats