transdecoder 5.7.1-2 source package in Ubuntu
Changelog
transdecoder (5.7.1-2) unstable; urgency=medium
* d/tests/control: skip tests when hmmer is not available on that
architecture.
-- Michael R. Crusoe <email address hidden> Thu, 14 Sep 2023 12:37:41 +0200
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- all
- Section:
- misc
- Urgency:
- Medium Urgency
See full publishing history Publishing
| Series | Published | Component | Section | |
|---|---|---|---|---|
| Oracular | release | universe | misc | |
| Noble | release | universe | misc |
Downloads
| File | Size | SHA-256 Checksum |
|---|---|---|
| transdecoder_5.7.1-2.dsc | 2.2 KiB | 971c3bc7461199761f1d65cd8e67daf355ce11aa0084b25522d73f27ee937eae |
| transdecoder_5.7.1.orig.tar.xz | 14.3 MiB | 308010e42203975877edf18633c8ae01ba1045be2b746eb18289d016479a9b70 |
| transdecoder_5.7.1-2.debian.tar.xz | 5.8 KiB | 7980d0423281844e91e7d32366d798704e9079cc49b996b4ca50d1576c5b49c6 |
Available diffs
- diff from 5.0.1-5 to 5.7.1-2 (201.8 KiB)
No changes file available.
Binary packages built by this source
- transdecoder: 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.
- transdecoder-doc: find coding regions within transcripts
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.
