How to Install and Uninstall clonalframeml Package on Ubuntu 21.10 (Impish Indri)

Last updated: May 14,2024

1. Install "clonalframeml" package

This tutorial shows how to install clonalframeml on Ubuntu 21.10 (Impish Indri)


    
        
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                sudo apt update
            
                    
    
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            $
        

        
            
                sudo apt install
            
                        
                clonalframeml
            
                    
    
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2. Uninstall "clonalframeml" package

Please follow the steps below to uninstall clonalframeml on Ubuntu 21.10 (Impish Indri):


    
        
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                sudo apt remove
            
                        
                clonalframeml
            
                    
    
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            $
        

        
            
                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the clonalframeml package on Ubuntu 21.10 (Impish Indri)

Package: clonalframeml
Architecture: amd64
Version: 1.12-1
Priority: optional
Section: universe/science
Origin: Ubuntu
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Installed-Size: 277
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 9)
Filename: pool/universe/c/clonalframeml/clonalframeml_1.12-1_amd64.deb
Size: 103764
MD5sum: 7c33ac3a18d421a1414351c2934a245a
SHA1: 4d80dd93c5540900537d548da2165fa3a545a37e
SHA256: b9f2b5b235d2cea0e58d77accf01957bdf6e1c6bbf30a87c2ad9600399536a7f
SHA512: 5f98bac50bdfc37f9594bc50eee31055fe0c61398db8409ebaef7cde21bcf40f5b5730d91e828806276c547dd058c4409ae15a1b91c903a0fb491f4b2795c577
Homepage: https://github.com/xavierdidelot/ClonalFrameML
Description-en: Efficient Inference of Recombination in Whole Bacterial Genomes
ClonalFrameML is a software package that performs efficient inference of
recombination in bacterial genomes. ClonalFrameML was created by Xavier
Didelot and Daniel Wilson. ClonalFrameML can be applied to any type of
aligned sequence data, but is especially aimed at analysis of whole
genome sequences. It is able to compare hundreds of whole genomes in a
matter of hours on a standard Desktop computer. There are three main
outputs from a run of ClonalFrameML: a phylogeny with branch lengths
corrected to account for recombination, an estimation of the key
parameters of the recombination process, and a genomic map of where
recombination took place for each branch of the phylogeny.
.
ClonalFrameML is a maximum likelihood implementation of the Bayesian
software ClonalFrame which was previously described by Didelot and
Falush (2007). The recombination model underpinning ClonalFrameML is
exactly the same as for ClonalFrame, but this new implementation is a
lot faster, is able to deal with much larger genomic dataset, and does
not suffer from MCMC convergence issues
Description-md5: d126c69c3417457c19f344bd1d674a69