combi

DOI: 10.18129/B9.bioc.combi    

Compositional omics model based visual integration

Bioconductor version: Release (3.11)

Combine quasi-likelihood estimation, compositional regression models and latent variable models for integrative visualization of several omics datasets. Both unconstrained and constrained integration is available, the results are shown as interpretable multiplots.

Author: Stijn Hawinkel <stijn.hawinkel at ugent.be>

Maintainer: Joris Meys <joris.meys at ugent.be>

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

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("combi")

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("combi")

 

HTML R Script Manual for the combi pacakage
PDF   Reference Manual
Text   NEWS

Details

biocViews DimensionReduction, Metabolomics, Metagenomics, Microbiome, Software, Visualization
Version 1.0.0
In Bioconductor since BioC 3.11 (R-4.0) (< 6 months)
License GPL-2
Depends R (>= 3.5.0)
Imports ggplot2, nleqslv, phyloseq, tensor, stats, limma, Matrix, BB, reshape2, alabama, cobs, Biobase, vegan, grDevices, graphics, methods, SummarizedExperiment
LinkingTo
Suggests knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL
BugReports https://github.com/CenterForStatistics-UGent/combi/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 combi_1.0.0.tar.gz
Windows Binary combi_1.0.0.zip
macOS 10.13 (High Sierra) combi_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/combi
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/combi
Package Short Url https://bioconductor.org/packages/combi/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.11 Source Archive

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