How To Install trinityrnaseq on Kali Linux

In this tutorial we learn how to install trinityrnaseq on Kali Linux. trinityrnaseq is RNA-Seq De novo Assembly

Introduction

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

What is trinityrnaseq

trinityrnaseq is:

Trinity represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes.

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

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

sudo apt-get update

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

sudo apt-get -y install trinityrnaseq

Install trinityrnaseq Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install trinityrnaseq

Install trinityrnaseq 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 trinityrnaseq using aptitude by running the following command:

sudo aptitude -y install trinityrnaseq

How To Uninstall trinityrnaseq on Kali Linux

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

sudo apt-get remove trinityrnaseq

Uninstall trinityrnaseq And Its Dependencies

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

sudo apt-get -y autoremove trinityrnaseq

Remove trinityrnaseq Configurations and Data

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

sudo apt-get -y purge trinityrnaseq

Remove trinityrnaseq configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge trinityrnaseq

Dependencies

trinityrnaseq have the following dependencies:

References

Summary

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