How To Install r-bioc-genomicalignments on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-genomicalignments on Debian 12.
What is r-bioc-genomicalignments
r-bioc-genomicalignments is:
This BioConductor package provides efficient containers for storing and manipulating short genomic alignments (typically obtained by aligning short reads to a reference genome). This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments.
There are three methods to install r-bioc-genomicalignments 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-genomicalignments 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-genomicalignments using apt-get by running the following command:
sudo apt-get -y install r-bioc-genomicalignments
Install r-bioc-genomicalignments Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-genomicalignments using apt by running the following command:
sudo apt -y install r-bioc-genomicalignments
Install r-bioc-genomicalignments 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-genomicalignments using aptitude by running the following command:
sudo aptitude -y install r-bioc-genomicalignments
How To Uninstall r-bioc-genomicalignments on Debian 12
To uninstall only the r-bioc-genomicalignments package we can use the following command:
sudo apt-get remove r-bioc-genomicalignments
Uninstall r-bioc-genomicalignments And Its Dependencies
To uninstall r-bioc-genomicalignments and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-genomicalignments
Remove r-bioc-genomicalignments Configurations and Data
To remove r-bioc-genomicalignments configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-genomicalignments
Remove r-bioc-genomicalignments configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-genomicalignments configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-genomicalignments
Dependencies
r-bioc-genomicalignments have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-biocgenerics
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-bioc-summarizedexperiment
- r-bioc-biostrings
- r-bioc-rsamtools
- r-bioc-biocparallel
- libc6
References
Summary
In this tutorial we learn how to install r-bioc-genomicalignments package on Debian 12 using different package management tools: apt, apt-get and aptitude.
