How To Install r-bioc-rtracklayer on Debian 11
Introduction
In this tutorial we learn how to install r-bioc-rtracklayer
on Debian 11.
What is r-bioc-rtracklayer
r-bioc-rtracklayer is:
Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.
There are three methods to install r-bioc-rtracklayer
on Debian 11. 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-rtracklayer 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-rtracklayer
using apt-get
by running the following command:
sudo apt-get -y install r-bioc-rtracklayer
Install r-bioc-rtracklayer Using apt
Update apt database with apt
using the following command.
sudo apt update
After updating apt database, We can install r-bioc-rtracklayer
using apt
by running the following command:
sudo apt -y install r-bioc-rtracklayer
Install r-bioc-rtracklayer 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-rtracklayer
using aptitude
by running the following command:
sudo aptitude -y install r-bioc-rtracklayer
How To Uninstall r-bioc-rtracklayer on Debian 11
To uninstall only the r-bioc-rtracklayer
package we can use the following command:
sudo apt-get remove r-bioc-rtracklayer
Uninstall r-bioc-rtracklayer And Its Dependencies
To uninstall r-bioc-rtracklayer
and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove r-bioc-rtracklayer
Remove r-bioc-rtracklayer Configurations and Data
To remove r-bioc-rtracklayer
configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge r-bioc-rtracklayer
Remove r-bioc-rtracklayer configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-rtracklayer
configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-rtracklayer
Dependencies
r-bioc-rtracklayer have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.12
- r-bioc-genomicranges
- r-cran-xml
- r-bioc-biocgenerics
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-xvector
- r-bioc-genomeinfodb
- r-bioc-biostrings
- r-bioc-zlibbioc
- r-cran-rcurl
- r-bioc-rsamtools
- r-bioc-genomicalignments
- libc6
- zlib1g
References
Summary
In this tutorial we learn how to install r-bioc-rtracklayer
package on Debian 11 using different package management tools: apt
, apt-get
and aptitude
.