How To Install allelecount on Kali Linux

Introduction

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

What is allelecount

allelecount is:

Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each allele [ACGT] at that location (given any filter settings).

The alleleCount package primarily exists to prevent code duplication between some other projects, specifically AscatNGS and Battenberg.

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

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

sudo apt-get update

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

sudo apt-get -y install allelecount

Install allelecount Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install allelecount

Install allelecount 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 allelecount using aptitude by running the following command:

sudo aptitude -y install allelecount

How To Uninstall allelecount on Kali Linux

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

sudo apt-get remove allelecount

Uninstall allelecount And Its Dependencies

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

sudo apt-get -y autoremove allelecount

Remove allelecount Configurations and Data

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

sudo apt-get -y purge allelecount

Remove allelecount configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge allelecount

Dependencies

allelecount have the following dependencies:

• libc6
• libhts3

References

• allelecount website

Summary

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