How To Install r-bioc-pwmenrich on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-pwmenrich on Debian 12.
What is r-bioc-pwmenrich
r-bioc-pwmenrich is:
A toolkit of high-level functions for DNA motif scanning and enrichment analysis built upon Biostrings. The main functionality is PWM enrichment analysis of already known PWMs (e.g. from databases such as MotifDb), but the package also implements high-level functions for PWM scanning and visualisation. The package does not perform “de novo” motif discovery, but is instead focused on using motifs that are either experimentally derived or computationally constructed by other tools.
There are three methods to install r-bioc-pwmenrich 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-pwmenrich 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-pwmenrich using apt-get by running the following command:
sudo apt-get -y install r-bioc-pwmenrich
Install r-bioc-pwmenrich Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-pwmenrich using apt by running the following command:
sudo apt -y install r-bioc-pwmenrich
Install r-bioc-pwmenrich 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-pwmenrich using aptitude by running the following command:
sudo aptitude -y install r-bioc-pwmenrich
How To Uninstall r-bioc-pwmenrich on Debian 12
To uninstall only the r-bioc-pwmenrich package we can use the following command:
sudo apt-get remove r-bioc-pwmenrich
Uninstall r-bioc-pwmenrich And Its Dependencies
To uninstall r-bioc-pwmenrich and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-pwmenrich
Remove r-bioc-pwmenrich Configurations and Data
To remove r-bioc-pwmenrich configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-pwmenrich
Remove r-bioc-pwmenrich configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-pwmenrich configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-pwmenrich
Dependencies
r-bioc-pwmenrich have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-biocgenerics
- r-bioc-biostrings
- r-bioc-seqlogo
- r-cran-gdata
- r-cran-evd
- r-bioc-s4vectors
References
Summary
In this tutorial we learn how to install r-bioc-pwmenrich package on Debian 12 using different package management tools: apt, apt-get and aptitude.
