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

Last updated: December 24,2024

1. Install "transdecoder" package

Please follow the guidelines below to install transdecoder on Ubuntu 21.10 (Impish Indri)


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

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


    
        
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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 21.10 (Impish Indri)

Package: transdecoder
Architecture: all
Version: 5.0.1-3
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: 531
Depends: perl:any, liburi-perl, r-base-core, python3
Filename: pool/universe/t/transdecoder/transdecoder_5.0.1-3_all.deb
Size: 185092
MD5sum: 61fc69d0c0795363532413a702fee23c
SHA1: cfd8297f6541102a4737f720d5e94f673ae80fa5
SHA256: b56b4e74248de1c8a42df2a79119173208c3d3f69f88d8960fd17b0802cb6b4a
SHA512: 2ee93d3b22fbb7fac242943be44665e6b12abba68be73b8e7773b74c7723401a31774febb129484c42bcee92db14fb014f3377170a3b4befabf9ee59e6f8777d
Homepage: https://transdecoder.github.io/
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