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Bioconductor - combi (development version)

combi

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

Compositional omics model based visual integration

Bioconductor version: Development (3.22)

This explorative ordination method combines quasi-likelihood estimation, compositional regression models and latent variable models for integrative visualization of several omics datasets. Both unconstrained and constrained integration are available. The results are shown as interpretable, compositional multiplots.

Author: Stijn Hawinkel [cre, aut] ORCID: 0000-0002-4501-5180

Maintainer: Stijn Hawinkel <stijn.hawinkel at psb.ugent.be>

Citation (from within R, enter citation("combi")): 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("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")
Details biocViews DimensionReduction, Metabolomics, Metagenomics, Microbiome, Software, Visualization Version 1.21.0 In Bioconductor since BioC 3.11 (R-4.0) (5 years) License GPL-2 Depends R (>= 4.0), DBI Imports ggplot2, nleqslv, phyloseq, tensor, stats, limma, Matrix (>= 1.6.0), BB, reshape2, alabama, cobs, Biobase, vegan, grDevices, graphics, methods, SummarizedExperiment System Requirements URL Bug Reports https://github.com/CenterForStatistics-UGent/combi/issues See More Package Archives

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

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