transdecoder 2.0.1+dfsg-1~ubuntu14.04.1 source package in Ubuntu
Changelog
transdecoder (2.0.1+dfsg-1~ubuntu14.04.1) trusty-backports; urgency=medium * No-change backport to trusty (LP: #1506743) -- Micah Gersten <email address hidden> Tue, 20 Oct 2015 23:26:03 -0500
Upload details
- Uploaded by:
- Micah Gersten
- Uploaded to:
- Trusty
- Original maintainer:
- Debian Med
- Architectures:
- all
- Section:
- science
- Urgency:
- Medium Urgency
See full publishing history Publishing
| Series | Published | Component | Section | |
|---|---|---|---|---|
| Trusty | backports | universe | science |
Downloads
| File | Size | SHA-256 Checksum |
|---|---|---|
| transdecoder_2.0.1+dfsg.orig.tar.gz | 8.8 MiB | f38be834d8fde09a1f6387938b9f809cd41977706c242cb0648f741816506f13 |
| transdecoder_2.0.1+dfsg-1~ubuntu14.04.1.debian.tar.gz | 3.8 KiB | 8f7894bdeb1d2fff763f9fe70cabe693b82a0efe7f0a0f21de4db71bdf671eda |
| transdecoder_2.0.1+dfsg-1~ubuntu14.04.1.dsc | 2.1 KiB | 25e2b5d5c06a2f5d4c6d36b6e72ef4cf9782456077f7c42311ef61f59ba3d0e6 |
Available diffs
Binary packages built by this source
- transdecoder: 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.
- 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.
