How To Install r-bioc-dropletutils on Debian 11
Introduction
In this tutorial we learn how to install r-bioc-dropletutils on Debian 11.
What is r-bioc-dropletutils
r-bioc-dropletutils is:
Provides a number of utility functions for handling single-cell (RNA-seq) data from droplet technologies such as 10X Genomics. This includes data loading from count matrices or molecule information files, identification of cells from empty droplets, removal of barcode-swapped pseudo-cells, and downsampling of the count matrix.
There are three methods to install r-bioc-dropletutils on Debian 11. 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-dropletutils 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-dropletutils using apt-get by running the following command:
sudo apt-get -y install r-bioc-dropletutils
Install r-bioc-dropletutils Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install r-bioc-dropletutils using apt by running the following command:
sudo apt -y install r-bioc-dropletutils
Install r-bioc-dropletutils 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-dropletutils using aptitude by running the following command:
sudo aptitude -y install r-bioc-dropletutils
How To Uninstall r-bioc-dropletutils on Debian 11
To uninstall only the r-bioc-dropletutils package we can use the following command:
sudo apt-get remove r-bioc-dropletutils
Uninstall r-bioc-dropletutils And Its Dependencies
To uninstall r-bioc-dropletutils and its dependencies that are no longer needed by Debian 11, we can use the command below:
sudo apt-get -y autoremove r-bioc-dropletutils
Remove r-bioc-dropletutils Configurations and Data
To remove r-bioc-dropletutils configuration and data from Debian 11 we can use the following command:
sudo apt-get -y purge r-bioc-dropletutils
Remove r-bioc-dropletutils configuration, data, and all of its dependencies
We can use the following command to remove r-bioc-dropletutils configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge r-bioc-dropletutils
Dependencies
r-bioc-dropletutils have the following dependencies:
- r-base-core
- r-api-4.0
- r-api-bioc-3.12
- r-bioc-singlecellexperiment
- r-cran-matrix
- r-cran-rcpp
- r-bioc-biocgenerics
- r-bioc-s4vectors
- r-bioc-summarizedexperiment
- r-bioc-biocparallel
- r-bioc-delayedarray
- r-bioc-hdf5array
- r-bioc-rhdf5
- r-bioc-edger
- r-cran-r.utils
- r-cran-dqrng
- r-bioc-beachmat
- r-bioc-scuttle
- r-bioc-rhdf5lib
- r-cran-bh
- libc6
- libgcc-s1
- libhdf5-103-1
- libhdf5-cpp-103-1
- libstdc++6
References
Summary
In this tutorial we learn how to install r-bioc-dropletutils package on Debian 11 using different package management tools: apt, apt-get and aptitude.