[ Bron: transdecoder ]
Pakket: transdecoder (5.7.1-2)
Verwijzigingen voor transdecoder
Debian bronnen:
Het bronpakket transdecoder downloaden:
Beheerders:
- Debian Med Packaging Team (QA-pagina, Mailarchief)
- Michael R. Crusoe (QA-pagina)
- Andreas Tille (QA-pagina)
Externe bronnen:
- Homepage [transdecoder.github.io]
Vergelijkbare pakketten:
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.
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