MineICA
This is the development version of MineICA; for the stable release version, see MineICA.
Analysis of an ICA decomposition obtained on genomics data
Bioconductor version: Development (3.21)
The goal of MineICA is to perform Independent Component Analysis (ICA) on multiple transcriptome datasets, integrating additional data (e.g molecular, clinical and pathological). This Integrative ICA helps the biological interpretation of the components by studying their association with variables (e.g sample annotations) and gene sets, and enables the comparison of components from different datasets using correlation-based graph.
Author: Anne Biton
Maintainer: Anne Biton <anne.biton at gmail.com>
citation("MineICA")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MineICA")
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("MineICA")| MineICA: Independent component analysis of genomic data | R Script | |
| Reference Manual |
Details
| biocViews | MultipleComparison, Software, Visualization |
| Version | 1.47.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11.5 years) |
| License | GPL-2 |
| Depends | R (>= 2.10), methods, BiocGenerics(>= 0.13.8), Biobase, plyr, ggplot2, scales, foreach, xtable, biomaRt, gtools, GOstats, cluster, marray, mclust, RColorBrewer, colorspace, igraph, Rgraphviz, graph, annotate, Hmisc, fastICA, JADE |
| Imports | AnnotationDbi, lumi, fpc, lumiHumanAll.db |
| System Requirements | |
| URL |
See More
| Suggests | biomaRt, GOstats, cluster, hgu133a.db, mclust, igraph, breastCancerMAINZ, breastCancerTRANSBIG, breastCancerUPP, breastCancerVDX, future, future.apply |
| Linking To | |
| Enhances | doMC |
| 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 | MineICA_1.47.0.tar.gz |
| Windows Binary (x86_64) | MineICA_1.47.0.zip |
| macOS Binary (x86_64) | MineICA_1.47.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/MineICA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MineICA |
| Bioc Package Browser | https://code.bioconductor.org/browse/MineICA/ |
| Package Short Url | https://bioconductor.org/packages/MineICA/ |
| Package Downloads Report | Download Stats |