How To Install pftools on Kali Linux
Introduction
In this tutorial we learn how to install pftools on Kali Linux.
What is pftools
pftools is:
The pftools package contains all the software necessary to build protein and DNA generalized profiles and use them to scan and align sequences, and search databases.
File formats used by the pftools
- Generalized profiles format and syntax.
- The multiple sequence alignment format (PSA).
- The extended header multiple sequence alignment format (XPSA).
Programs to build generalized profiles pfmake Build a profile from a multiple sequence alignment. pfscale Fit parameters of an extreme-value distribution to a profile score list. pfw Weight sequences of a multiple sequence alignment to correct for sampling bias.
Programs to search with generalized profiles pfsearch / pfsearchV3 Search a protein or DNA sequence library for sequence segments matching a profile (V3 is the new version of this tool). pfscan Scan a protein or DNA sequence with a profile library
Conversion programs psa2msa Reformat PSA file to Pearson/Fasta multiple sequence alignment file. ptof Convert a protein profile into a frame-search profile to search DNA sequences. To be used with 2ft. 2ft Converts both strands of DNA into so-called interleaved frame-translated DNA sequences to search with protein profiles. To be used with ptof. 6ft Translates all six reading frames of a double-stranded DNA sequence into individual protein sequences. pfgtop Convert a profile in GCG format into PROSITE format. pfhtop Convert a HMMER1 ASCII-formatted HMM into an equivalent PROSITE profile. ptoh Converts a generalized profile into an approximately equivalent HMM profile in HMMER1 format (can be read by the hmmconvert program from the HMMER2 package).
There are three methods to install pftools on Kali Linux. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install pftools Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get updateAfter updating apt database, We can install pftools using apt-get by running the following command:
sudo apt-get -y install pftoolsInstall pftools Using apt
Update apt database with apt using the following command.
sudo apt updateAfter updating apt database, We can install pftools using apt by running the following command:
sudo apt -y install pftoolsInstall pftools Using aptitude
If you want to follow this method, you might need to install aptitude on Kali Linux first since aptitude is usually not installed by default on Kali Linux. Update apt database with aptitude using the following command.
sudo aptitude updateAfter updating apt database, We can install pftools using aptitude by running the following command:
sudo aptitude -y install pftoolsHow To Uninstall pftools on Kali Linux
To uninstall only the pftools package we can use the following command:
sudo apt-get remove pftoolsUninstall pftools And Its Dependencies
To uninstall pftools and its dependencies that are no longer needed by Kali Linux, we can use the command below:
sudo apt-get -y autoremove pftoolsRemove pftools Configurations and Data
To remove pftools configuration and data from Kali Linux we can use the following command:
sudo apt-get -y purge pftoolsRemove pftools configuration, data, and all of its dependencies
We can use the following command to remove pftools configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge pftoolsDependencies
pftools have the following dependencies:
References
Summary
In this tutorial we learn how to install pftools package on Kali Linux using different package management tools: apt, apt-get and aptitude.