How To Install r-bioc-ggbio on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-ggbio on Debian 12.
What is r-bioc-ggbio
r-bioc-ggbio is:
The ggbio package extends and specializes the grammar of graphics for biological data. The graphics are designed to answer common scientific questions, in particular those often asked of high throughput genomics data. All core Bioconductor data structures are supported, where appropriate. The package supports detailed views of particular genomic regions, as well as genome-wide overviews. Supported overviews include ideograms and grand linear views. High-level plots include sequence fragment length, edge-linked interval to data view, mismatch pileup, and several splicing summaries.
There are three methods to install r-bioc-ggbio 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-ggbio 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-ggbio using apt-get by running the following command:
sudo apt-get -y install r-bioc-ggbio
Install r-bioc-ggbio Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-ggbio using apt by running the following command:
sudo apt -y install r-bioc-ggbio
Install r-bioc-ggbio 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-ggbio using aptitude by running the following command:
sudo aptitude -y install r-bioc-ggbio
How To Uninstall r-bioc-ggbio on Debian 12
To uninstall only the r-bioc-ggbio package we can use the following command:
sudo apt-get remove r-bioc-ggbio
Uninstall r-bioc-ggbio And Its Dependencies
To uninstall r-bioc-ggbio and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-ggbio
Remove r-bioc-ggbio Configurations and Data
To remove r-bioc-ggbio configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-ggbio
Remove r-bioc-ggbio configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-ggbio configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-ggbio
Dependencies
r-bioc-ggbio have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-biocgenerics
- r-cran-ggplot2
- r-cran-gridextra
- r-cran-scales
- r-cran-reshape2
- r-cran-gtable
- r-cran-hmisc
- r-bioc-biovizbase
- r-bioc-biobase
- r-bioc-s4vectors
- r-bioc-iranges
- r-bioc-genomeinfodb
- r-bioc-genomicranges
- r-bioc-summarizedexperiment
- r-bioc-biostrings
- r-bioc-rsamtools
- r-bioc-genomicalignments
- r-bioc-bsgenome
- r-bioc-variantannotation
- r-bioc-rtracklayer
- r-bioc-genomicfeatures
- r-bioc-organismdbi
- r-cran-ggally
- r-bioc-ensembldb
- r-bioc-annotationdbi
- r-bioc-annotationfilter
- r-cran-rlang
References
Summary
In this tutorial we learn how to install r-bioc-ggbio package on Debian 12 using different package management tools: apt, apt-get and aptitude.