How To Install fitgcp on Kali Linux

Introduction

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

What is fitgcp

fitgcp is:

Genome coverage, the number of sequencing reads mapped to a position in a genome, is an insightful indicator of irregularities within sequencing experiments. While the average genome coverage is frequently used within algorithms in computational genomics, the complete information available in coverage profiles (i.e. histograms over all coverages) is currently not exploited to its full extent. Thus, biases such as fragmented or erroneous reference genomes often remain unaccounted for. Making this information accessible can improve the quality of sequencing experiments and quantitative analyses.

fitGCP is a framework for fitting mixtures of probability distributions to genome coverage profiles. Besides commonly used distributions, fitGCP uses distributions tailored to account for common artifacts. The mixture models are iteratively fitted based on the Expectation-Maximization algorithm.

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

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

sudo apt-get update

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

sudo apt-get -y install fitgcp

Install fitgcp Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install fitgcp

Install fitgcp 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 fitgcp using aptitude by running the following command:

sudo aptitude -y install fitgcp

How To Uninstall fitgcp on Kali Linux

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

sudo apt-get remove fitgcp

Uninstall fitgcp And Its Dependencies

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

sudo apt-get -y autoremove fitgcp

Remove fitgcp Configurations and Data

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

sudo apt-get -y purge fitgcp

Remove fitgcp configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge fitgcp

Dependencies

fitgcp have the following dependencies:

• python3

References

• fitgcp website

Summary

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