How To Install mecat2 on Kali Linux

In this tutorial we learn how to install mecat2 on Kali Linux. mecat2 is ultra-fast and accurate de novo assembly tools for SMRT reads

Introduction

In this tutorial we learn how to install mecat2 on Kali Linux.

What is mecat2

mecat2 is:

An improved version of MECAT. It is an ultra-fast and accurate mapping and error correcting de novo assembly tools for single molecula sequencing (SMRT) reads. MECAT2 consists of the following three modules:

  1. mecat2map: a fast and accurate alignment tool for SMRT reads.
  2. mecat2cns: correct noisy reads based on their pairwise overlaps.
  3. fsa: a string graph based assembly tool.

There are three methods to install mecat2 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 mecat2 Using apt-get

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

sudo apt-get update

After updating apt database, We can install mecat2 using apt-get by running the following command:

sudo apt-get -y install mecat2

Install mecat2 Using apt

Update apt database with apt using the following command.

sudo apt update

After updating apt database, We can install mecat2 using apt by running the following command:

sudo apt -y install mecat2

Install mecat2 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 mecat2 using aptitude by running the following command:

sudo aptitude -y install mecat2

How To Uninstall mecat2 on Kali Linux

To uninstall only the mecat2 package we can use the following command:

sudo apt-get remove mecat2

Uninstall mecat2 And Its Dependencies

To uninstall mecat2 and its dependencies that are no longer needed by Kali Linux, we can use the command below:

sudo apt-get -y autoremove mecat2

Remove mecat2 Configurations and Data

To remove mecat2 configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge mecat2

Remove mecat2 configuration, data, and all of its dependencies

We can use the following command to remove mecat2 configurations, data and all of its dependencies, we can use the following command:

sudo apt-get -y autoremove --purge mecat2

Dependencies

mecat2 have the following dependencies:

References

Summary

In this tutorial we learn how to install mecat2 package on Kali Linux using different package management tools: apt, apt-get and aptitude.