How To Install r-bioc-shortread on Kali Linux

In this tutorial we learn how to install r-bioc-shortread on Kali Linux. r-bioc-shortread is GNU R classes and methods for high-throughput short-read sequencing data

Introduction

In this tutorial we learn how to install r-bioc-shortread on Kali Linux.

What is r-bioc-shortread

r-bioc-shortread is:

This BioConductor module is a package for input, quality assessment, manipulation and output of high-throughput sequencing data. ShortRead is provided in the R and Bioconductor environments, allowing ready access to additional facilities for advanced statistical analysis, data transformation, visualization and integration with diverse genomic resources.

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

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

Install r-bioc-shortread Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install r-bioc-shortread

Install r-bioc-shortread Using aptitude

If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install r-bioc-shortread

How To Uninstall r-bioc-shortread on Kali Linux

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

sudo apt-get remove r-bioc-shortread

Uninstall r-bioc-shortread And Its Dependencies

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

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

Remove r-bioc-shortread Configurations and Data

To remove r-bioc-shortread configuration and data from Kali Linux we can use the following command:

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

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

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

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

Dependencies

r-bioc-shortread have the following dependencies:

References

Summary

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