How to Install and Uninstall bio-rainbow Package on Ubuntu 21.10 (Impish Indri)

Last updated: November 22,2024

1. Install "bio-rainbow" package

Please follow the steps below to install bio-rainbow on Ubuntu 21.10 (Impish Indri)


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                bio-rainbow
            
                    
    
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2. Uninstall "bio-rainbow" package

This is a short guide on how to uninstall bio-rainbow on Ubuntu 21.10 (Impish Indri):


    
        
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                sudo apt remove
            
                        
                bio-rainbow
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the bio-rainbow package on Ubuntu 21.10 (Impish Indri)

Package: bio-rainbow
Architecture: amd64
Version: 2.0.4+dfsg-2
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: 194
Depends: libc6 (>= 2.29), perl:any
Filename: pool/universe/b/bio-rainbow/bio-rainbow_2.0.4+dfsg-2_amd64.deb
Size: 60600
MD5sum: 5258a824f4359a0eb8070f5b41df2ae4
SHA1: f676fd6efb72885862871f2a38966f2323912275
SHA256: 0dfb7e8d0325e0bf415107581c1368482500ea83b0984af6763f17ec4913a4eb
SHA512: 5dadf41900ccc940ec5c0fa4eb34d725a069652a912f7d1595e9a87aa2253345f8f563ee68799d563c420298c090276e4b0172eb0a86dce7c8de382a7ff8a33e
Homepage: http://sourceforge.net/projects/bio-rainbow/
Description-en: clustering and assembling short reads for bioinformatics
Efficient tool for clustering and assembling short reads,
especially for RAD.
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Rainbow is developed to provide an ultra-fast and memory-efficient
solution to clustering and assembling short reads produced by RAD-seq.
First, Rainbow clusters reads using a spaced seed method. Then, Rainbow
implements a heterozygote calling like strategy to divide potential
groups into haplotypes in a top-down manner. long a guided tree, it
iteratively merges sibling leaves in a bottom-up manner if they are
similar enough. Here, the similarity is defined by comparing the 2nd
reads of a RAD segment. This approach tries to collapse heterozygote
while discriminate repetitive sequences. At last, Rainbow uses a greedy
algorithm to locally assemble merged reads into contigs. Rainbow not
only outputs the optimal but also suboptimal assembly results. Based on
simulation and a real guppy RAD-seq data, it is shown that Rainbow is
more competent than the other tools in dealing with RAD-seq data.
Description-md5: 9923da0307e9697918f7aeba3ffbc7dd