transdecoder binary package in Ubuntu Noble arm64
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.
Publishing history
Date | Status | Target | Component | Section | Priority | Phased updates | Version | ||
---|---|---|---|---|---|---|---|---|---|
2023-10-30 12:11:37 UTC | Published | Ubuntu Noble arm64 | release | universe | science | Optional | 5.7.1-2 | ||
|
|||||||||
Deleted | Ubuntu Noble arm64 | proposed | universe | science | Optional | 5.7.1-2 | |||
|
|||||||||
2023-10-30 12:14:37 UTC | Superseded | Ubuntu Noble arm64 | release | universe | science | Optional | 5.0.1-5 | ||
|