How To Install bio-vcf on Kali Linux

Introduction

In this tutorial we learn how to install bio-vcf on Kali Linux.

What is bio-vcf

bio-vcf is:

Bio-vcf provides a domain specific language (DSL) for processing the VCF format. Record named fields can be queried with regular expressions, e.g.

sample.dp>20 and rec.filter !~ /LowQD/ and rec.tumor.bcount[rec.alt]>4

Bio-vcf is a new generation VCF parser, filter and converter. Bio-vcf is not only very fast for genome-wide (WGS) data, it also comes with a really nice filtering, evaluation and rewrite language and it can output any type of textual data, including VCF header and contents in RDF and JSON.

There are three methods to install bio-vcf 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 bio-vcf Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install bio-vcf

Install bio-vcf Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install bio-vcf

Install bio-vcf 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 bio-vcf using aptitude by running the following command:

sudo aptitude -y install bio-vcf

How To Uninstall bio-vcf on Kali Linux

To uninstall only the bio-vcf package we can use the following command:

sudo apt-get remove bio-vcf

Uninstall bio-vcf And Its Dependencies

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

sudo apt-get -y autoremove bio-vcf

Remove bio-vcf Configurations and Data

To remove bio-vcf configuration and data from Kali Linux we can use the following command:

sudo apt-get -y purge bio-vcf

Remove bio-vcf configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge bio-vcf

Dependencies

bio-vcf have the following dependencies:

• ruby

References

• bio-vcf website

Summary

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