How To Install r-bioc-bsseq on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-bsseq on Debian 12.
What is r-bioc-bsseq
r-bioc-bsseq is:
A collection of tools for analyzing and visualizing bisulfite sequencing data.
There are three methods to install r-bioc-bsseq 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-bsseq 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-bsseq using apt-get by running the following command:
sudo apt-get -y install r-bioc-bsseq
Install r-bioc-bsseq Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-bsseq using apt by running the following command:
sudo apt -y install r-bioc-bsseq
Install r-bioc-bsseq 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-bsseq using aptitude by running the following command:
sudo aptitude -y install r-bioc-bsseq
How To Uninstall r-bioc-bsseq on Debian 12
To uninstall only the r-bioc-bsseq package we can use the following command:
sudo apt-get remove r-bioc-bsseq
Uninstall r-bioc-bsseq And Its Dependencies
To uninstall r-bioc-bsseq and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-bsseq
Remove r-bioc-bsseq Configurations and Data
To remove r-bioc-bsseq configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-bsseq
Remove r-bioc-bsseq configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-bsseq configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-bsseq
Dependencies
r-bioc-bsseq have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-biocgenerics
- r-bioc-genomicranges
- r-bioc-summarizedexperiment
- r-bioc-iranges
- r-bioc-genomeinfodb
- r-cran-scales
- r-bioc-biobase
- r-cran-locfit
- r-cran-gtools
- r-cran-data.table
- r-bioc-s4vectors
- r-cran-r.utils
- r-bioc-delayedmatrixstats
- r-cran-permute
- r-bioc-limma
- r-bioc-delayedarray
- r-cran-rcpp
- r-bioc-biocparallel
- r-bioc-bsgenome
- r-bioc-biostrings
- r-bioc-hdf5array
- r-bioc-rhdf5
- r-bioc-beachmat
- libc6
- libgcc-s1
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-bsseq package on Debian 12 using different package management tools: apt, apt-get and aptitude.
