How To Install r-bioc-bsgenome on Debian 9
Introduction
In this tutorial we learn how to install r-bioc-bsgenome on Debian 9.
What is r-bioc-bsgenome
r-bioc-bsgenome is:
This BioConductor module provides some basic infrastructure for Biostrings-based genome data packages.
There are three methods to install r-bioc-bsgenome on Debian 9. 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-bsgenome 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-bsgenome using apt-get by running the following command:
sudo apt-get -y install r-bioc-bsgenome
Install r-bioc-bsgenome Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-bsgenome using apt by running the following command:
sudo apt -y install r-bioc-bsgenome
Install r-bioc-bsgenome 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-bsgenome using aptitude by running the following command:
sudo aptitude -y install r-bioc-bsgenome
How To Uninstall r-bioc-bsgenome on Debian 9
To uninstall only the r-bioc-bsgenome package we can use the following command:
sudo apt-get remove r-bioc-bsgenome
Uninstall r-bioc-bsgenome And Its Dependencies
To uninstall r-bioc-bsgenome and its dependencies that are no longer needed by Debian 9, we can use the command below:
sudo apt-get -y autoremove r-bioc-bsgenome
Remove r-bioc-bsgenome Configurations and Data
To remove r-bioc-bsgenome configuration and data from Debian 9 we can use the following command:
sudo apt-get -y purge r-bioc-bsgenome
Remove r-bioc-bsgenome configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-bsgenome configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-bsgenome
Dependencies
r-bioc-bsgenome have the following dependencies:
- r-base-core
- r-api-3
- r-bioc-biocgenerics
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-bioc-biostrings
- r-bioc-rtracklayer
- r-bioc-xvector
- r-bioc-rsamtools
References
Summary
In this tutorial we learn how to install r-bioc-bsgenome package on Debian 9 using different package management tools: apt, apt-get and aptitude.