How To Install stringtie on Kali Linux

In this tutorial we learn how to install stringtie on Kali Linux. stringtie is assemble short RNAseq reads to transcripts

Introduction

In this tutorial we learn how to install stringtie on Kali Linux.

What is stringtie

stringtie is:

The abundance of transcripts in a human tissue sample can be determined by RNA sequencing. The exact sequence sampled may be random, depending on the technology used. And it may be short, i.e. shorter than the transcript. At some point, many shorter reads need to be assembled to the model the complete transcripts.

StringTie knows how to assemble of RNA-Seq into potential transcripts without the need of a reference genome and provides a quantification also of the splice variants.

There are three methods to install stringtie 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 stringtie Using apt-get

Update apt database with apt-get using the following command.

sudo apt-get update

After updating apt database, We can install stringtie using apt-get by running the following command:

sudo apt-get -y install stringtie

Install stringtie Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install stringtie using apt by running the following command:

sudo apt -y install stringtie

Install stringtie 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 stringtie using aptitude by running the following command:

sudo aptitude -y install stringtie

How To Uninstall stringtie on Kali Linux

To uninstall only the stringtie package we can use the following command:

sudo apt-get remove stringtie

Uninstall stringtie And Its Dependencies

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

sudo apt-get -y autoremove stringtie

Remove stringtie Configurations and Data

To remove stringtie configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge stringtie

Remove stringtie configuration, data, and all of its dependencies

We can use the following command to remove stringtie configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge stringtie

Dependencies

stringtie have the following dependencies:

References

Summary

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