How To Install python3-nanoget-examples on Debian 12
Introduction
In this tutorial we learn how to install python3-nanoget-examples on Debian 12.
What is python3-nanoget-examples
python3-nanoget-examples is:
The Python3 module nanoget provides functions to extract useful metrics from Oxford Nanopore sequencing reads and alignments.
Data can be presented in the following formats, using the following functions:
- sorted bam file process_bam(bamfile, threads)
- standard fastq file process_fastq_plain(fastqfile, ’threads')
- fastq file with metadata from MinKNOW or Albacore process_fastq_rich(fastqfile)
- sequencing_summary file generated by Albacore process_summary(sequencing_summary.txt, ‘readtype’)
Fastq files can be compressed using gzip, bzip2 or bgzip. The data is returned as a pandas DataFrame with standardized headernames for convenient extraction. The functions perform logging while being called and extracting data.
This package just contains an example script and the data to run the example.
There are three methods to install python3-nanoget-examples 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 python3-nanoget-examples Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install python3-nanoget-examples using apt-get by running the following command:
sudo apt-get -y install python3-nanoget-examples
Install python3-nanoget-examples Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install python3-nanoget-examples using apt by running the following command:
sudo apt -y install python3-nanoget-examples
Install python3-nanoget-examples 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 python3-nanoget-examples using aptitude by running the following command:
sudo aptitude -y install python3-nanoget-examples
How To Uninstall python3-nanoget-examples on Debian 12
To uninstall only the python3-nanoget-examples package we can use the following command:
sudo apt-get remove python3-nanoget-examples
Uninstall python3-nanoget-examples And Its Dependencies
To uninstall python3-nanoget-examples and its dependencies that are no longer needed by Debian 12, we can use the command below:
sudo apt-get -y autoremove python3-nanoget-examples
Remove python3-nanoget-examples Configurations and Data
To remove python3-nanoget-examples configuration and data from Debian 12 we can use the following command:
sudo apt-get -y purge python3-nanoget-examples
Remove python3-nanoget-examples configuration, data, and all of its dependencies
We can use the following command to remove python3-nanoget-examples configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge python3-nanoget-examples
Dependencies
python3-nanoget-examples have the following dependencies:
References
Summary
In this tutorial we learn how to install python3-nanoget-examples package on Debian 12 using different package management tools: apt, apt-get and aptitude.
