How To Install r-bioc-rsamtools on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-rsamtools on Debian 12.
What is r-bioc-rsamtools
r-bioc-rsamtools is:
This package provides an interface to the ‘samtools’, ‘bcftools’, and ’tabix’ utilities for manipulating SAM (Sequence Alignment / Map), binary variant call (BCF) and compressed indexed tab-delimited (tabix) files.
There are three methods to install r-bioc-rsamtools 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-rsamtools 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-rsamtools using apt-get by running the following command:
sudo apt-get -y install r-bioc-rsamtools
Install r-bioc-rsamtools Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-rsamtools using apt by running the following command:
sudo apt -y install r-bioc-rsamtools
Install r-bioc-rsamtools 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-rsamtools using aptitude by running the following command:
sudo aptitude -y install r-bioc-rsamtools
How To Uninstall r-bioc-rsamtools on Debian 12
To uninstall only the r-bioc-rsamtools package we can use the following command:
sudo apt-get remove r-bioc-rsamtools
Uninstall r-bioc-rsamtools And Its Dependencies
To uninstall r-bioc-rsamtools and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-rsamtools
Remove r-bioc-rsamtools Configurations and Data
To remove r-bioc-rsamtools configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-rsamtools
Remove r-bioc-rsamtools configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-rsamtools configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-rsamtools
Dependencies
r-bioc-rsamtools have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-bioc-biostrings
- r-bioc-biocgenerics
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-xvector
- r-bioc-zlibbioc
- r-cran-bitops
- r-bioc-biocparallel
- r-bioc-rhtslib
- libc6
- libcurl4
- libgcc-s1
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-rsamtools package on Debian 12 using different package management tools: apt, apt-get and aptitude.
