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multiSight

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.18 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see multiSight.

Multi-omics Classification, Functional Enrichment and Network Inference analysis


Bioconductor version: Release (3.18)

multiSight is an R package providing functions to analyze your omic datasets in a multi-omics manner based on Stouffer's p-value pooling and multi-block statistical methods. For each omic dataset you furnish, multiSight provides classification models with feature selection you can use as biosignature: (i) To forecast phenotypes (e.g. to diagnostic tasks, histological subtyping), (ii) To design Pathways and gene ontology enrichments (Over Representation Analysis), (iii) To build Network inference linked to PubMed querying to make assumptions easier and data-driven. Main analysis are embedded in an user-friendly graphical interface.

Author: Florian Jeanneret [cre, aut] , Stephane Gazut [aut]

Maintainer: Florian Jeanneret <florian.jeanneret at cea.fr>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("multiSight")

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

Documentation

Reference Manual PDF

Details

biocViews Classification, DifferentialExpression, GeneSetEnrichment, Network, NetworkInference, Pathways, RNASeq, Software, miRNA
Version 1.10.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License CeCILL + file LICENSE
Depends R (>= 4.1)
Imports golem, config, R6, shiny, shinydashboard, DT, dplyr, stringr, anyLib, caret, biosigner, mixOmics, stats, DESeq2, clusterProfiler, rWikiPathways, ReactomePA, enrichplot, ppcor, metap, infotheo, igraph, networkD3, easyPubMed, utils, htmltools, rmarkdown, ggnewscale
System Requirements
URL
Bug Reports https://github.com/Fjeanneret/multiSight/issues
See More
Suggests org.Mm.eg.db, rlang, markdown, attempt, processx, testthat, knitr, BiocStyle
Linking To
Enhances
Depends On Me
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Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/multiSight
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/multiSight
Package Short Url https://bioconductor.org/packages/multiSight/
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