How to Install and Uninstall abacas Package on Ubuntu 20.10 (Groovy Gorilla)

Last updated: April 19,2024

1. Install "abacas" package

This guide let you learn how to install abacas on Ubuntu 20.10 (Groovy Gorilla)


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

This guide let you learn how to uninstall abacas on Ubuntu 20.10 (Groovy Gorilla):


    
        
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                sudo apt remove
            
                        
                abacas
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the abacas package on Ubuntu 20.10 (Groovy Gorilla)

Package: abacas
Architecture: all
Version: 1.3.1-8
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: 109
Depends: mummer
Recommends: primer3, abacas-examples
Filename: pool/universe/a/abacas/abacas_1.3.1-8_all.deb
Size: 24644
MD5sum: 6cf922da59b73b0ad3a54452b2556a36
SHA1: cddc3ac23043779bca9664739b3266d76af9ed37
SHA256: ba7d86e2e5f3f58b49901cd0d8923690c4b1c675894f802001658614b8a6e641
SHA512: c0d97da516bb148a42f0661b60bc381e597683ff512d50d49f35c414709003be6eea84b39c88e088bac3f11845fdca1806b2cf7925342ebd405ce7e7a42edf51
Homepage: http://abacas.sourceforge.net/
Description-en: close gaps in genomic alignments from short reads
ABACAS (Algorithm Based Automatic Contiguation of Assembled Sequences)
intends to rapidly contiguate (align, order, orientate), visualize and
design primers to close gaps on shotgun assembled contigs based on a
reference sequence.
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ABACAS uses MUMmer to find alignment positions and identify syntenies
of assembled contigs against the reference. The output is then processed
to generate a pseudomolecule taking overlapping contigs and gaps in to
account. ABACAS generates a comparison file that can be used to
visualize ordered and oriented contigs in ACT. Synteny is represented by
red bars where colour intensity decreases with lower values of percent
identity between comparable blocks. Information on contigs such as the
orientation, percent identity, coverage and overlap with other contigs
can also be visualized by loading the outputted feature file on ACT.
Description-md5: 2037379aa4a21c795f2b3f3ba85ac577