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RepeatGluer specifications

Information


Unique identifier OMICS_21819
Name RepeatGluer
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained No

Versioning


No version available

Maintainer


This tool is not available anymore.

Publication for RepeatGluer

RepeatGluer citations

 (3)
library_books

Characterization of the past and current duplication activities in the human 22q11.2 region

2011
BMC Genomics
PMCID: 3040729
PMID: 21269513
DOI: 10.1186/1471-2164-12-71

[…] outside of 22q11.2 were not included, as our goal was to study the intra-LCR22 duplications implicated in human disorders. The pair-wise alignment information of these SDs was provided to the program RepeatGluer [] for decomposing the 404 SDs into 523 non-overlapping duplication subunits. This approach is motivated by previous study [,]; a comparison of our subunits with those defined previously b […]

library_books

Identifying repeat domains in large genomes

2006
Genome Biol
PMCID: 1431705
PMID: 16507140
DOI: 10.1186/gb-2006-7-1-r7

[…] repeat family libraries and directly reveals composite repeats. Repeat family libraries have historically been constructed via manual curation. Recently, algorithms such as RepeatFinder [], RECON [], RepeatGluer [], PILER [] and RepeatScout [] are increasingly automating the process of identifying repeat families from genomic sequence. For example, RECON has aided the construction of a library of […]

library_books

ReAS: Recovery of Ancestral Sequences for Transposable Elements from the Unassembled Reads of a Whole Genome Shotgun

2005
PLoS Comput Biol
PMCID: 1232128
PMID: 16184192
DOI: 10.1371/journal.pcbi.0010043

[…] ed algorithms for detecting TEs. It relies on a comparison to known TEs from libraries like Repbase [], which represents many years of manual labor. Computational tools like REPuter [], RECON [], and RepeatGluer [] automate this process. However, almost all of the genomes sequenced today employ a whole genome shotgun (WGS) method that is incapable of assembling the most recent TEs, and any efforts […]

Citations

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RepeatGluer institution(s)
Department of Computer Science and Engineering, University of California, San Diego,La Jolla, CA, USA; Department of Mathematics, University of California, San Diego,La Jolla, CA, USA
RepeatGluer funding source(s)
Supported by NHGRI grant 1 R01 HG02366.

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