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TE-locate specifications

Information


Unique identifier OMICS_03507
Name TE-locate
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java, Perl
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Viktoria Nizhynska <>

Publication for TE-locate

TE-locate citations

 (2)
library_books

Natural Variation in the Distribution and Abundance of Transposable Elements Across the Caenorhabditis elegans Species

2017
PMCID: 5850821
PMID: 28486636
DOI: 10.1093/molbev/msx155

[…] could be classified into 224 unique families (, online, and fasta at www.andersenlab.org/data/laricchia_etal)., the performances of three transposon-detection programs, temp (), retroseq (), and te-locate () were evaluated based on their abilities to detect transposon insertions. these programs were chosen because they each accept bam/sam files as inputs and support bwa-mem alignments. […]

library_books

Illumina TruSeq Synthetic Long Reads Empower De Novo Assembly and Resolve Complex, Highly Repetitive Transposable Elements

2014
PMCID: 4154752
PMID: 25188499
DOI: 10.1371/journal.pone.0106689

[…] of genome evolution, as repeats affect genome size structure, as well as genome function , , –. several tools (e.g. t-lex2 , retroseq , tea , ngs_te_mapper , relocate , retroseq , popoolation te , te-locate ) are currently available for discovery and annotation of te sequences in high-throughput sequencing data. however, because these tools depend on the quality of the assembly […]


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TE-locate institution(s)
Gregor Mendel Institute (GMI), Vienna, Austria, Gregor Mendel Institute (GMI), Vienna, Austria, Gregor Mendel Institute (GMI), Vienna, Austria
TE-locate funding source(s)
Supported by the Austrian Academy of Sciences.

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