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consICA

This is the development version of consICA; for the stable release version, see consICA.

consensus Independent Component Analysis


Bioconductor version: Development (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Classification, FeatureExtraction, RNASeq, Sequencing, Software, StatisticalMethod, Technology, Transcriptomics
Version 2.1.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
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, ggplot2, methods, Rfast, pheatmap, survival, topGO, graphics, grDevices
System Requirements
URL
Bug Reports https://github.com/biomod-lih/consICA/issues
See More
Suggests knitr, BiocStyle, rmarkdown, testthat, Seurat
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package consICA_2.1.0.tar.gz
Windows Binary consICA_2.1.0.zip
macOS Binary (x86_64) consICA_2.1.0.tgz
macOS Binary (arm64) consICA_2.1.0.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