Introduction
In this tutorial we learn how to install q2-sample-classifier on Kali Linux.
What is q2-sample-classifier
q2-sample-classifier is:
QIIME 2 is a powerful, extensible, and decentralized microbiome analysis
package with a focus on data and analysis transparency. QIIME 2 enables
researchers to start an analysis with raw DNA sequence data and finish with
publication-quality figures and statistical results.
Key features:
- Integrated and automatic tracking of data provenance
- Semantic type system
- Plugin system for extending microbiome analysis functionality
- Support for multiple types of user interfaces (e.g. API, command line,
graphical)
QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis
pipeline. QIIME 2 will address many of the limitations of QIIME 1, while
retaining the features that makes QIIME 1 a powerful and widely-used analysis
pipeline.
QIIME 2 currently supports an initial end-to-end microbiome analysis pipeline.
New functionality will regularly become available through QIIME 2 plugins. You
can view a list of plugins that are currently available on the QIIME 2 plugin
availability page. The future plugins page lists plugins that are being
developed.
Microbiome studies often aim to predict outcomes or differentiate samples
based on their microbial compositions, tasks that can be efficiently
performed by supervised learning methods. The q2-sample-classifier plugin
makes these methods more accessible, reproducible, and interpretable to
a broad audience of microbiologists, clinicians, and others who wish to
utilize supervised learning methods for predicting sample characteristics
based on microbiome composition or other “omics” data
There are three methods to install q2-sample-classifier 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 q2-sample-classifier Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install q2-sample-classifier using apt-get by running the following command:
sudo apt-get -y install q2-sample-classifierInstall q2-sample-classifier Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install q2-sample-classifier using apt by running the following command:
sudo apt -y install q2-sample-classifier
Install q2-sample-classifier 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 updateAfter updating apt database, We can install q2-sample-classifier using aptitude by running the following command:
sudo aptitude -y install q2-sample-classifier
How To Uninstall q2-sample-classifier on Kali Linux
To uninstall only the q2-sample-classifier package we can use the following command:
sudo apt-get remove q2-sample-classifier
Uninstall q2-sample-classifier And Its Dependencies
To uninstall q2-sample-classifier and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove q2-sample-classifier
Remove q2-sample-classifier Configurations and Data
To remove q2-sample-classifier configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge q2-sample-classifier
Remove q2-sample-classifier configuration, data, and all of its dependencies
We can use the following command to remove q2-sample-classifier configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge q2-sample-classifier
Dependencies
q2-sample-classifier have the following dependencies:
References
Summary
In this tutorial we learn how to install q2-sample-classifier package on Kali Linux using different package management tools: apt, apt-get and aptitude.
