How To Install ipig on Debian 9

In this tutorial we learn how to install ipig on Debian 9. ipig is integrating PSMs into genome browser visualisations

Introduction

In this tutorial we learn how to install ipig on Debian 9.

What is ipig

ipig is:

iPiG targets the integration of peptide spectrum matches (PSMs) from mass spectrometry (MS) peptide identifications into genomic visualisations provided by genome browser such as the UCSC genome browser (http://genome.ucsc.edu/).

iPiG takes PSMs from the MS standard format mzIdentML (*.mzid) or in text format and provides results in genome track formats (BED and GFF3 files), which can be easily imported into genome browsers.

There are three methods to install ipig on Debian 9. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.

Install ipig Using apt-get

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

sudo apt-get update

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

sudo apt-get -y install ipig

Install ipig Using apt

Update apt database with apt using the following command.

sudo apt update

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

sudo apt -y install ipig

Install ipig Using aptitude

If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.

sudo aptitude update

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

sudo aptitude -y install ipig

How To Uninstall ipig on Debian 9

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

sudo apt-get remove ipig

Uninstall ipig And Its Dependencies

To uninstall ipig and its dependencies that are no longer needed by Debian 9, we can use the command below:

sudo apt-get -y autoremove ipig

Remove ipig Configurations and Data

To remove ipig configuration and data from Debian 9 we can use the following command:

sudo apt-get -y purge ipig

Remove ipig configuration, data, and all of its dependencies

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

sudo apt-get -y autoremove --purge ipig

Dependencies

ipig have the following dependencies:

References

Summary

In this tutorial we learn how to install ipig package on Debian 9 using different package management tools: apt, apt-get and aptitude.