How To Install insilicoseq on Debian 11
Introduction
In this tutorial we learn how to install insilicoseq
on Debian 11.
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 11. 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 11
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 11, 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 11 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 11 using different package management tools: apt
, apt-get
and aptitude
.