transdecoder-doc binary package in Ubuntu Xenial amd64
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.
Publishing history
Date | Status | Target | Component | Section | Priority | Phased updates | Version | ||
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2015-12-29 13:44:01 UTC | Published | Ubuntu Xenial amd64 | release | universe | doc | Optional | 2.0.1+dfsg-2 | ||
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Deleted | Ubuntu Xenial amd64 | proposed | universe | doc | Optional | 2.0.1+dfsg-2 | |||
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2015-12-29 13:44:08 UTC | Superseded | Ubuntu Xenial amd64 | release | universe | doc | Optional | 2.0.1+dfsg-1 | ||
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