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

Last updated: April 28,2024

1. Install "transdecoder" package

Please follow the guidance below to install transdecoder on Ubuntu 16.04 LTS (Xenial Xerus)


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

This guide covers the steps necessary to uninstall transdecoder on Ubuntu 16.04 LTS (Xenial Xerus):


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

Package: transdecoder
Priority: optional
Section: universe/science
Installed-Size: 274
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Architecture: all
Version: 2.0.1+dfsg-2
Depends: perl, cd-hit, liburi-perl
Filename: pool/universe/t/transdecoder/transdecoder_2.0.1+dfsg-2_all.deb
Size: 57042
MD5sum: 3381e6a409c5d36ebed10f181556ad93
SHA1: 707a1b2e69e8d761741fde2fa4d77b10f9a560e9
SHA256: ed9eca4cb925b50b7e2bd8151abbb2f5fef23c76c0da07ed6fc0aa45e004a26c
Description-en: find coding regions within RNA transcript sequences
TransDecoder identifies candidate coding regions within transcript sequences,
such as those generated by de novo RNA-Seq transcript assembly using Trinity,
or constructed based on RNA-Seq alignments to the genome using Tophat and
Cufflinks.
.
TransDecoder identifies likely coding sequences based on the following
criteria:
* a minimum length open reading frame (ORF) is found in a transcript sequence
* a log-likelihood score similar to what is computed by the GeneID software
is > 0.
* the above coding score is greatest when the ORF is scored in the 1st
reading frame as compared to scores in the other 5 reading frames.
* if a candidate ORF is found fully encapsulated by the coordinates of
another candidate ORF, the longer one is reported. However, a single
transcript can report multiple ORFs (allowing for operons, chimeras, etc).
* optional the putative peptide has a match to a Pfam domain above the noise
cutoff score.
Description-md5: 7e0297054e6db1517322f3983f80b94c
Homepage: https://transdecoder.github.io/
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Origin: Ubuntu