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

Last updated: November 05,2024

1. Install "transdecoder-doc" package

In this section, we are going to explain the necessary steps to install transdecoder-doc on Ubuntu 16.04 LTS (Xenial Xerus)


    
        
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                sudo apt update
            
                    
    
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            $
        

        
            
                sudo apt install
            
                        
                transdecoder-doc
            
                    
    
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2. Uninstall "transdecoder-doc" package

This tutorial shows how to uninstall transdecoder-doc on Ubuntu 16.04 LTS (Xenial Xerus):


    
        
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                sudo apt remove
            
                        
                transdecoder-doc
            
                    
    
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            $
        

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

Package: transdecoder-doc
Priority: optional
Section: universe/doc
Installed-Size: 56031
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Architecture: all
Source: transdecoder
Version: 2.0.1+dfsg-2
Depends: perl
Filename: pool/universe/t/transdecoder/transdecoder-doc_2.0.1+dfsg-2_all.deb
Size: 16711662
MD5sum: ba71dbc107798137d2409c02c5a08e28
SHA1: e9414a39c48dd632c4d30494a50fa3db561b7bfe
SHA256: 7aad55b6d271469c5e962723ce0988c04ebaa66bf836c682f548b9674898a91b
Description-en: find coding regions within transcripts
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.
.
This package contains the documentation and sample data.
Description-md5: 168523ac6b085515328a1fe5c662dc8b
Homepage: https://transdecoder.github.io/
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Origin: Ubuntu