How To Install r-bioc-edger on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-edger on Debian 12.
What is r-bioc-edger
r-bioc-edger is:
Bioconductor package for differential expression analysis of whole transcriptome sequencing (RNA-seq) and digital gene expression profiles with biological replication. It uses empirical Bayes estimation and exact tests based on the negative binomial distribution. It is also useful for differential signal analysis with other types of genome-scale count data.
There are three methods to install r-bioc-edger 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-edger 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-edger using apt-get by running the following command:
sudo apt-get -y install r-bioc-edger
Install r-bioc-edger Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-edger using apt by running the following command:
sudo apt -y install r-bioc-edger
Install r-bioc-edger 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-edger using aptitude by running the following command:
sudo aptitude -y install r-bioc-edger
How To Uninstall r-bioc-edger on Debian 12
To uninstall only the r-bioc-edger package we can use the following command:
sudo apt-get remove r-bioc-edger
Uninstall r-bioc-edger And Its Dependencies
To uninstall r-bioc-edger and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-edger
Remove r-bioc-edger Configurations and Data
To remove r-bioc-edger configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-edger
Remove r-bioc-edger configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-edger configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-edger
Dependencies
r-bioc-edger have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-limma
- r-cran-locfit
- r-cran-rcpp
- libblas3
- libc6
- libgcc-s1
- liblapack3
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-edger package on Debian 12 using different package management tools: apt, apt-get and aptitude.
