microbiomeDASim
Tools to simulate longitudinal differential abundance for microbiome data
Science Score: 23.0%
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○CITATION.cff file
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✓DOI references
Found 2 DOI reference(s) in README -
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1 of 2 committers (50.0%) from academic institutions -
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Low similarity (9.7%) to scientific vocabulary
Repository
Tools to simulate longitudinal differential abundance for microbiome data
Basic Info
- Host: GitHub
- Owner: williazo
- License: other
- Language: Jupyter Notebook
- Default Branch: master
- Size: 5.47 MB
Statistics
- Stars: 3
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Microbiome Differential Abundance Simulation
This package is developed to simulate microbiome data for longitudinal differential abundance analyses. Microbiome data have a variety of features that make typical simulation methods inappropriate. For an in-depth description of the types of problems this simulation package is designed to solve, plus basics of the functionality please refer to the F1000 manuscript f1000research.20660.2.
Installation
To install the microbiomeDASim package the latest release version is
available from Bioconductor
``` r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("microbiomeDASim") ```
Alternatively to use the latest development version from Bioconductor use the following commands
``` r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("microbiomeDASim", version="devel") ```
Examples
An interactive examples for how to simulate data from a multivariate
normal distribution and fit a trend line using
metagenomeSeq::fitTimeSeries
are available in the inst/scripts directory.
This notebook can be run interactively using Google Collab by clicking the “Open in Colab” marker at the top of the notebook.
GitHub Events
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Last Year
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Justin Williams | w****o@u****u | 44 |
| Nitesh Turaga | n****a@g****m | 4 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
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Total downloads:
- bioconductor 9,104 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 5
- Total maintainers: 1
bioconductor.org: microbiomeDASim
Microbiome Differential Abundance Simulation
- Homepage: https://github.com/williazo/microbiomeDASim
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/microbiomeDASim/inst/doc/microbiomeDASim.pdf
- License: MIT + file LICENSE
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Latest release: 1.22.0
published about 1 year ago