How To Install r-bioc-scran on Ubuntu

Posted on April 1, 2023 (Last modified on May 20, 2023 )

2 minutes • 393 words

Introduction

In this tutorial we learn how to install r-bioc-scran on Ubuntu.

What is `r-bioc-scran`

r-bioc-scran is:

Implements functions for low-level analyses of single-cell RNA-seq data. Methods are provided for normalization of cell-specific biases, assignment of cell cycle phase, detection of highly variable and significantly correlated genes, identification of marker genes, and other common tasks in routine single-cell analysis workflows.

There are three methods to install r-bioc-scran on Ubuntu. 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-scran 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-scran using apt-get by running the following command:

sudo apt-get -y install r-bioc-scran

Install r-bioc-scran Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install r-bioc-scran using apt by running the following command:

sudo apt -y install r-bioc-scran

Install r-bioc-scran 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 Ubuntu. Update apt database with aptitude using the following command.

sudo aptitude update

After updating apt database, We can install r-bioc-scran using aptitude by running the following command:

sudo aptitude -y install r-bioc-scran

How To Uninstall r-bioc-scran on Ubuntu

To uninstall only the r-bioc-scran package we can use the following command:

sudo apt-get remove r-bioc-scran

Uninstall r-bioc-scran And Its Dependencies

To uninstall r-bioc-scran and its dependencies that are no longer needed by Ubuntu, we can use the command below:

sudo apt-get -y autoremove r-bioc-scran

Remove r-bioc-scran Configurations and Data

To remove r-bioc-scran configuration and data from Ubuntu we can use the following command:

sudo apt-get -y purge r-bioc-scran

Remove r-bioc-scran configuration, data, and all of its dependencies

We can use the following command to remove r-bioc-scran configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge r-bioc-scran

Dependencies

r-bioc-scran have the following dependencies:

References

r-bioc-scran website

Summary

In this tutorial we learn how to install r-bioc-scran package on Ubuntu using different package management tools: apt, apt-get and aptitude.