How To Install r-bioc-ioniser on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-ioniser on Debian 12.
What is r-bioc-ioniser
r-bioc-ioniser is:
IONiseR provides tools for the quality assessment of Oxford Nanopore MinION data. It extracts summary statistics from a set of fast5 files and can be used either before or after base calling. In addition to standard summaries of the read-types produced, it provides a number of plots for visualising metrics relative to experiment run time or spatially over the surface of a flowcell.
There are three methods to install r-bioc-ioniser 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-ioniser 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-ioniser using apt-get by running the following command:
sudo apt-get -y install r-bioc-ioniser
Install r-bioc-ioniser Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-ioniser using apt by running the following command:
sudo apt -y install r-bioc-ioniser
Install r-bioc-ioniser 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-ioniser using aptitude by running the following command:
sudo aptitude -y install r-bioc-ioniser
How To Uninstall r-bioc-ioniser on Debian 12
To uninstall only the r-bioc-ioniser package we can use the following command:
sudo apt-get remove r-bioc-ioniser
Uninstall r-bioc-ioniser And Its Dependencies
To uninstall r-bioc-ioniser and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-ioniser
Remove r-bioc-ioniser Configurations and Data
To remove r-bioc-ioniser configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-ioniser
Remove r-bioc-ioniser configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-ioniser configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-ioniser
Dependencies
r-bioc-ioniser have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-rhdf5
- r-cran-dplyr
- r-cran-magrittr
- r-cran-tidyr
- r-bioc-shortread
- r-bioc-biostrings
- r-cran-ggplot2
- r-bioc-biocgenerics
- r-bioc-xvector
- r-cran-tibble
- r-bioc-biocparallel
- r-cran-bit64
- r-cran-stringr
References
Summary
In this tutorial we learn how to install r-bioc-ioniser package on Debian 12 using different package management tools: apt, apt-get and aptitude.
