How To Install paleomix on Kali Linux

In this tutorial we learn how to install paleomix on Kali Linux. paleomix is pipelines and tools for the processing of ancient and modern HTS data

Introduction

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

What is paleomix

paleomix is:

The PALEOMIX pipelines are a set of pipelines and tools designed to aid the rapid processing of High-Throughput Sequencing (HTS) data: The BAM pipeline processes de-multiplexed reads from one or more samples, through sequence processing and alignment, to generate BAM alignment files useful in downstream analyses; the Phylogenetic pipeline carries out genotyping and phylogenetic inference on BAM alignment files, either produced using the BAM pipeline or generated elsewhere; and the Zonkey pipeline carries out a suite of analyses on low coverage equine alignments, in order to detect the presence of F1-hybrids in archaeological assemblages. In addition, PALEOMIX aids in metagenomic analysis of the extracts.

The pipelines have been designed with ancient DNA (aDNA) in mind, and includes several features especially useful for the analyses of ancient samples, but can all be for the processing of modern samples, in order to ensure consistent data processing.

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

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

sudo apt-get update

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

sudo apt-get -y install paleomix

Install paleomix Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install paleomix

Install paleomix 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 paleomix using aptitude by running the following command:

sudo aptitude -y install paleomix

How To Uninstall paleomix on Kali Linux

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

sudo apt-get remove paleomix

Uninstall paleomix And Its Dependencies

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

sudo apt-get -y autoremove paleomix

Remove paleomix Configurations and Data

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

sudo apt-get -y purge paleomix

Remove paleomix configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge paleomix

Dependencies

paleomix have the following dependencies:

References

Summary

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