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multiSight

Multi-omics Classification, Functional Enrichment and Network Inference analysis

Bioconductor version: Release (3.17)

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

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("multiSight")
multiSight quick start guide HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Classification, DifferentialExpression, GeneSetEnrichment, Network, NetworkInference, Pathways, RNASeq, Software, miRNA
Version 1.7.0
In Bioconductor since BioC 3.13 (R-4.1) (2 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
Linking To
Suggests org.Mm.eg.db, rlang, markdown, attempt, processx, testthat, knitr, BiocStyle
System Requirements
Enhances
URL
Bug Reports https://github.com/Fjeanneret/multiSight/issues
See More
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 multiSight_1.7.0.tar.gz
Windows Binary multiSight_1.7.0.zip
macOS Binary (x86_64)
macOS Binary (arm64) multiSight_1.7.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/multiSight
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/multiSight
Bioc Package Browser https://code.bioconductor.org/browse/multiSight/
Package Short Url https://bioconductor.org/packages/multiSight/
Package Downloads Report Download Stats