How To Install r-bioc-singler on Debian 12
Introduction
In this tutorial we learn how to install r-bioc-singler on Debian 12.
What is r-bioc-singler
r-bioc-singler is:
Performs unbiased cell type recognition from single-cell RNA sequencing data, by leveraging reference transcriptomic datasets of pure cell types to infer the cell of origin of each single cell independently.
There are three methods to install r-bioc-singler 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-singler 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-singler using apt-get by running the following command:
sudo apt-get -y install r-bioc-singler
Install r-bioc-singler Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-singler using apt by running the following command:
sudo apt -y install r-bioc-singler
Install r-bioc-singler 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-singler using aptitude by running the following command:
sudo aptitude -y install r-bioc-singler
How To Uninstall r-bioc-singler on Debian 12
To uninstall only the r-bioc-singler package we can use the following command:
sudo apt-get remove r-bioc-singler
Uninstall r-bioc-singler And Its Dependencies
To uninstall r-bioc-singler and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove r-bioc-singler
Remove r-bioc-singler Configurations and Data
To remove r-bioc-singler configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge r-bioc-singler
Remove r-bioc-singler configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-singler configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-singler
Dependencies
r-bioc-singler have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.16
- r-bioc-summarizedexperiment
- r-cran-matrix
- r-bioc-s4vectors
- r-bioc-delayedarray
- r-bioc-delayedmatrixstats
- r-bioc-biocparallel
- r-bioc-biocsingular
- r-cran-rcpp
- r-bioc-beachmat
- r-bioc-biocneighbors
- libc6
- libgcc-s1
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-singler package on Debian 12 using different package management tools: apt, apt-get and aptitude.