transdecoder - find coding regions within RNA transcript sequences

Property Value
Distribution Ubuntu 16.04 LTS (Xenial Xerus)
Repository Ubuntu Universe i386
Package name transdecoder
Package version 2.0.1+dfsg
Package release 2
Package architecture all
Package type deb
Installed size 274 B
Download size 55.71 KB
Official Mirror
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
TransDecoder identifies likely coding sequences based on the following
* 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.


Package Version Architecture Repository
transdecoder_2.0.1+dfsg-2_all.deb 2.0.1+dfsg all Ubuntu Universe
transdecoder - - -


Name Value
cd-hit -
liburi-perl -
perl -


Type URL
Binary Package transdecoder_2.0.1+dfsg-2_all.deb
Source Package transdecoder

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install transdecoder deb package:
    # sudo apt-get install transdecoder




2015-12-28 - Andreas Tille <>
transdecoder (2.0.1+dfsg-2) unstable; urgency=medium
[ Andreas Tille ]
* Slightly enhanced short description
* Lintian override for false positive package-contains-timestamped-gzip
* DEP3 headers
[ Charles Plessy ]
* Make output reproducible.
Closes: #809187

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