combi
This is the development version of combi; for the stable release version, see combi.
Compositional omics model based visual integration
Bioconductor version: Development (3.21)
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:
Maintainer: Stijn Hawinkel <stijn.hawinkel at psb.ugent.be>
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
| Reference Manual |
Details
| biocViews | DimensionReduction, Metabolomics, Metagenomics, Microbiome, Software, Visualization |
| Version | 1.19.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4.5 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
| Suggests | knitr, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| 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 | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |