How To Install insilicoseq on Debian 12
Introduction
In this tutorial we learn how to install insilicoseq on Debian 12.
What is insilicoseq
insilicoseq is:
Primarily intended for simulating metagenomic samples, it can also be used to produce sequencing data from a single genome.
InSilicoSeq is written in Python, and use kernel density estimators to model the read quality of real sequencing data.
InSilicoSeq support substitution, insertion and deletion errors. If you don’t have the use for insertion and deletion error a basic error model is provided.
There are three methods to install insilicoseq on Debian 12. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install insilicoseq Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install insilicoseq using apt-get by running the following command:
sudo apt-get -y install insilicoseq
Install insilicoseq Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install insilicoseq using apt by running the following command:
sudo apt -y install insilicoseq
Install insilicoseq 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 insilicoseq using aptitude by running the following command:
sudo aptitude -y install insilicoseq
How To Uninstall insilicoseq on Debian 12
To uninstall only the insilicoseq package we can use the following command:
sudo apt-get remove insilicoseq
Uninstall insilicoseq And Its Dependencies
To uninstall insilicoseq and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove insilicoseq
Remove insilicoseq Configurations and Data
To remove insilicoseq configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge insilicoseq
Remove insilicoseq configuration, data, and all of its dependencies
We can use the following command to remove insilicoseq configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge insilicoseq
Dependencies
insilicoseq have the following dependencies:
- python3-biopython
- python3-future
- python3-joblib
- python3-numpy
- python3-pysam
- python3-requests
- python3-scipy
- python3
References
Summary
In this tutorial we learn how to install insilicoseq package on Debian 12 using different package management tools: apt, apt-get and aptitude.