How To Install r-bioc-phyloseq on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-phyloseq on Debian 12.
What is r-bioc-phyloseq
r-bioc-phyloseq is:
The Bioconductor module phyloseq provides a set of classes and tools to facilitate the import, storage, analysis, and graphical display of microbiome census data.
There are three methods to install r-bioc-phyloseq on Debian 12. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install r-bioc-phyloseq Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install r-bioc-phyloseq using apt-get by running the following command:
sudo apt-get -y install r-bioc-phyloseq
Install r-bioc-phyloseq Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-phyloseq using apt by running the following command:
sudo apt -y install r-bioc-phyloseq
Install r-bioc-phyloseq Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install r-bioc-phyloseq using aptitude by running the following command:
sudo aptitude -y install r-bioc-phyloseq
How To Uninstall r-bioc-phyloseq on Debian 12
To uninstall only the r-bioc-phyloseq package we can use the following command:
sudo apt-get remove r-bioc-phyloseq
Uninstall r-bioc-phyloseq And Its Dependencies
To uninstall r-bioc-phyloseq and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-phyloseq
Remove r-bioc-phyloseq Configurations and Data
To remove r-bioc-phyloseq configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-phyloseq
Remove r-bioc-phyloseq configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-phyloseq configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-phyloseq
Dependencies
r-bioc-phyloseq have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-cran-ade4
- r-cran-ape
- r-bioc-biobase
- r-bioc-biocgenerics
- r-bioc-biomformat
- r-bioc-biostrings
- r-cran-cluster
- r-cran-data.table
- r-cran-foreach
- r-cran-ggplot2
- r-cran-igraph
- r-bioc-multtest
- r-cran-plyr
- r-cran-reshape2
- r-cran-scales
- r-cran-vegan
References
Summary
In this tutorial we learn how to install r-bioc-phyloseq package on Debian 12 using different package management tools: apt, apt-get and aptitude.