article Open AccessTop 10% cited
LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons
BMC Bioinformatics · 2008 · Vol. 9(1) · pp. 18–18
David Ellinghaus✉(Universität Hamburg)Stefan Kurtz(Universität Hamburg)Ute Willhoeft(Universität Hamburg)
Abstract
LTRharvest is an efficient software tool delivering high quality annotation of LTR retrotransposons. It can, for example, process the largest human chromosome in approx. 8 minutes on a Linux PC with 4 GB of memory. Its flexibility and small space and run-time requirements makes LTRharvest a very competitive candidate for future LTR retrotransposon annotation projects. Moreover, the structured design and implementation and the availability as open source provides an excellent base for incorporating novel concepts to further improve prediction of LTR retrotransposons.
Chromosomal and Genetic VariationsGenomics and Phylogenetic StudiesRNA and protein synthesis mechanismsRetrotransposonTransposable elementGenomeBiologyAnnotationComputational biologyLong terminal repeatGeneticsComputer scienceSoftware
MeSH terms
AlgorithmsBase SequenceChromosome MappingMolecular Sequence DataProgramming LanguagesSoftwareSequence AlignmentSequence Analysis, DNARetroelements
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1,733
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Basic local alignment search tool
Journal of Molecular Biology · 1990 · 93,570 citations
Automated De Novo Identification of Repeat Sequence Families in Sequenced Genomes
Genome Research · 2002 · 1,029 citations
Initial sequencing and analysis of the human genome
Nature · 2001 · 24,452 citations
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