How To Install profphd on Debian 10
Introduction
In this tutorial we learn how to install profphd on Debian 10.
What is profphd
profphd is:
This package provides prof(1), the protein secondary structure, accessibility and transmembrane helix predictor from Burkhard Rost. Prediction is either done from protein sequence alone or from an alignment - the latter should be used for optimal performance.
How well does prof(1) perform?
Secondary structure is predicted at an expected average accuracy > 72% for the three states helix, strand and loop.
Solvent accessibility is predicted at a correlation coefficient (correlation between experimentally observed and predicted relative solvent accessibility) of 0.54
Transmembrane helix prediction has an expected per-residue accuracy of about 95%. The number of false positives, i.e., transmembrane helices predicted in globular proteins, is about 2%.
There are three methods to install profphd on Debian 10. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install profphd Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install profphd using apt-get by running the following command:
sudo apt-get -y install profphd
Install profphd Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install profphd using apt by running the following command:
sudo apt -y install profphd
Install profphd 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 profphd using aptitude by running the following command:
sudo aptitude -y install profphd
How To Uninstall profphd on Debian 10
To uninstall only the profphd package we can use the following command:
sudo apt-get remove profphd
Uninstall profphd And Its Dependencies
To uninstall profphd and its dependencies that are no longer needed by Debian 10, we can use the command below:
sudo apt-get -y autoremove profphd
Remove profphd Configurations and Data
To remove profphd configuration and data from Debian 10 we can use the following command:
sudo apt-get -y purge profphd
Remove profphd configuration, data, and all of its dependencies
We can use the following command to remove profphd configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge profphd
Dependencies
profphd have the following dependencies:
References
Summary
In this tutorial we learn how to install profphd package on Debian 10 using different package management tools: apt, apt-get and aptitude.
