How to Install and Uninstall phyml Package on Ubuntu 16.04 LTS (Xenial Xerus)

Last updated: May 19,2024

1. Install "phyml" package

Please follow the guidelines below to install phyml on Ubuntu 16.04 LTS (Xenial Xerus)


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                phyml
            
                    
    
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2. Uninstall "phyml" package

This tutorial shows how to uninstall phyml on Ubuntu 16.04 LTS (Xenial Xerus):


    
        
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                sudo apt remove
            
                        
                phyml
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the phyml package on Ubuntu 16.04 LTS (Xenial Xerus)

Package: phyml
Priority: optional
Section: universe/science
Installed-Size: 3317
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Architecture: amd64
Version: 3:3.2.0+dfsg-1
Depends: libc6 (>= 2.14), libhmsbeagle1v5
Filename: pool/universe/p/phyml/phyml_3.2.0+dfsg-1_amd64.deb
Size: 1137846
MD5sum: 97c921b68364277711d640738b6c565b
SHA1: 4cb7001e6a7f3df44849a60317edf5ba6b35096b
SHA256: 17b1c9bd9b9494be14e57f5efbdc916487e85cfc003ba772b2c35d56b86e2a95
Description-en: Phylogenetic estimation using Maximum Likelihood
PhyML is a software that estimates maximum likelihood phylogenies from
alignments of nucleotide or amino acid sequences. It provides a wide
range of options that were designed to facilitate standard phylogenetic
analyses. The main strengths of PhyML lies in the large number of
substitution models coupled to various options to search the space of
phylogenetic tree topologies, going from very fast and efficient methods
to slower but generally more accurate approaches. It also implements
two methods to evaluate branch supports in a sound statistical framework
(the non-parametric bootstrap and the approximate likelihood ratio test).
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PhyML was designed to process moderate to large data sets. In theory,
alignments with up to 4,000 sequences 2,000,000 character-long can
be analyzed. In practice however, the amount of memory required to process
a data set is proportional of the product of the number of sequences by their
length. Hence, a large number of sequences can only be processed provided
that they are short. Also, PhyML can handle long sequences provided that
they are not numerous. With most standard personal computers, the “comfort
zone” for PhyML generally lies around 3 to 500 sequences less than 2,000
character long.
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This package also includes PhyTime.
Description-md5: e17d56691eaa63bb88fc849229a6c8a4
Homepage: http://www.atgc-montpellier.fr/phyml
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Origin: Ubuntu