This is the development version of miaSim; to use it, please install the devel version of Bioconductor.
Microbiome Data Simulation
Bioconductor version: Development (3.14)
Microbiome time series simulation with generalized Lotka-Volterra model, Self-Organized Instability (SOI), and other models. Hubbell’s Neutral model is used to determine the abundance matrix. The resulting abundance matrix is applied to SummarizedExperiment or TreeSummarizedExperiment objects.
Author: Karoline Faust [aut], Yu Gao [aut], Emma Gheysen [aut], Daniel Rios Garza [aut], Yagmur Simsek [cre, aut], Leo Lahti [aut] 
Maintainer: Yagmur Simsek <yagmur.simsek at hsrw.org>
Citation (from within R,
enter citation("miaSim")):
Installation
To install this package, start R (version
“4.1”) and enter:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("miaSim")
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("miaSim")
Details
| biocViews | ATACSeq, Coverage, DNASeq, Microbiome, Network, Sequencing, Software |
| Version | 0.99.1 |
| In Bioconductor since | BioC 3.14 (R-4.1) |
| License | Artistic-2.0 | file LICENSE |
| Depends | SummarizedExperiment |
| Imports | deSolve, stats, methods, poweRlaw, utils |
| LinkingTo | |
| Suggests | rmarkdown, knitr, BiocStyle, devtools, testthat |
| SystemRequirements | |
| Enhances | |
| URL | github.com/microbiome/miaSim |
| BugReports | github.com/microbiome/miaSim/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.
Read more here: Source link
