How To Install r-bioc-structuralvariantannotation on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-structuralvariantannotation on Debian 12.
What is r-bioc-structuralvariantannotation
r-bioc-structuralvariantannotation is:
StructuralVariantAnnotation contains useful helper functions for dealing with structural variants in VCF format. The packages contains functions for parsing VCFs from a number of popular callers as well as functions for dealing with breakpoints involving two separate genomic loci encoded as GRanges objects.
There are three methods to install r-bioc-structuralvariantannotation 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-structuralvariantannotation 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-structuralvariantannotation using apt-get by running the following command:
sudo apt-get -y install r-bioc-structuralvariantannotation
Install r-bioc-structuralvariantannotation Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-structuralvariantannotation using apt by running the following command:
sudo apt -y install r-bioc-structuralvariantannotation
Install r-bioc-structuralvariantannotation 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-structuralvariantannotation using aptitude by running the following command:
sudo aptitude -y install r-bioc-structuralvariantannotation
How To Uninstall r-bioc-structuralvariantannotation on Debian 12
To uninstall only the r-bioc-structuralvariantannotation package we can use the following command:
sudo apt-get remove r-bioc-structuralvariantannotation
Uninstall r-bioc-structuralvariantannotation And Its Dependencies
To uninstall r-bioc-structuralvariantannotation and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-structuralvariantannotation
Remove r-bioc-structuralvariantannotation Configurations and Data
To remove r-bioc-structuralvariantannotation configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-structuralvariantannotation
Remove r-bioc-structuralvariantannotation configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-structuralvariantannotation configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-structuralvariantannotation
Dependencies
r-bioc-structuralvariantannotation have the following dependencies:
- r-base-core
- r-api-4.0
- r-bioc-genomicranges
- r-bioc-rtracklayer
- r-bioc-variantannotation
- r-bioc-biocgenerics
- r-cran-assertthat
- r-bioc-biostrings
- r-cran-stringr
- r-cran-dplyr
- r-cran-rlang
- r-bioc-genomicfeatures
- r-bioc-iranges
- r-bioc-s4vectors
- r-bioc-summarizedexperiment
- r-bioc-genomeinfodb
References
Summary
In this tutorial we learn how to install r-bioc-structuralvariantannotation package on Debian 12 using different package management tools: apt, apt-get and aptitude.
