ReTe pipeline

ReTe specifications

Information


Unique identifier OMICS_12335
Name ReTe
Alternative name RetroTector
Interface Web user interface, Application programming interface
Restrictions to use None
Input format Fasta or GenBank accession number
Output format text, eps, pdf jpg
Programming languages Java, PHP
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Göran Sperber <>

Information


Unique identifier OMICS_12335
Name ReTe
Alternative name RetroTector
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Stability Stable
Requirements MySQL database
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Göran Sperber <>

Publications for RetroTector

ReTe IN pipelines

 (2)
2016
PMCID: 5016936
PMID: 27613107
DOI: 10.1186/s12977-016-0301-x

[…] define their real impact and contribution to our genome., the 213 herv-w sequences were collected from grch37/hg19 assembly using a double approach that binds (1) the hg19 assembly analysis by the rete program package [50] and (2) a traditional blat search [51] in the ucsc genome browser database [95] using the repbase update [52] assembled ltr17-herv17-ltr17 consensus as a query. the elements […]

2013
PMCID: 3590765
PMID: 23335121
DOI: 10.1093/gbe/evt007

[…] fast bootstrapping (stamatakis et al. 2008) with 1,000 pseudoreplicate data sets., we identified 7,624 erv-derived elements (gag-, pro-, pol-, and env-derived sequences) in the bovine genome using retrotector (see materials and methods). the summary of all erv-derived elements obtained is presented in table 1 (supplementary table s3, supplementary material online, for each chromosome). […]

ReTe institution(s)
Physiology unit, Department of Neuroscience, Uppsala, Sweden; Linnaeus Centre for Bioinformatics, Biomedical Centre, Uppsala, Sweden; Section of Virology, Department of Medical Sciences, Uppsala University, Academic Hospital, Uppsala, Sweden

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