How To Install simkamin on Ubuntu
Posted on April 1, 2023 (Last modified on May 20, 2023 )
2 minutes • 395 words
Introduction
In this tutorial we learn how to install simkamin on Ubuntu.
What is simkamin
simkamin is:
Simka is a de novo comparative metagenomics tool. Simka represents each dataset as a k-mer spectrum and compute several classical ecological distances between them.
The difference with Simka stands in the fact that SimkaMin outputs approximate (but very similar) results by subsampling the kmer space. With this strategy, and with default parameters, SimkaMin is an order of magnitude faster, uses 10 times less memory and 70 times less disk than Simka.
There are three methods to install simkamin on Ubuntu. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install simkamin Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install simkamin using apt-get by running the following command:
sudo apt-get -y install simkamin
Install simkamin Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install simkamin using apt by running the following command:
sudo apt -y install simkamin
Install simkamin 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 Ubuntu. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install simkamin using aptitude by running the following command:
sudo aptitude -y install simkamin
How To Uninstall simkamin on Ubuntu
To uninstall only the simkamin package we can use the following command:
sudo apt-get remove simkamin
Uninstall simkamin And Its Dependencies
To uninstall simkamin and its dependencies that are no longer needed by Ubuntu, we can use the command below:
sudo apt-get -y autoremove simkamin
Remove simkamin Configurations and Data
To remove simkamin configuration and data from Ubuntu we can use the following command:
sudo apt-get -y purge simkamin
Remove simkamin configuration, data, and all of its dependencies
We can use the following command to remove simkamin configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge simkamin
Dependencies
simkamin have the following dependencies:
References
Summary
In this tutorial we learn how to install simkamin package on Ubuntu using different package management tools: apt, apt-get and aptitude.