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Publication type: Article in scientific journal
Type of review: Peer review (publication)
Title: TRAL : tandem repeat annotation library
Authors: Schaper, Elke
Korsunsky, Alexander
Pečerska, Jūlija
Messina, Antonio
Murri, Riccardo
Stockinger, Heinz
Zoller, Stefan
Xenarios, Ioannis
Anisimova, Maria
DOI: 10.1093/bioinformatics/btv306
Published in: Bioinformatics
Volume(Issue): 31
Issue: 18
Page(s): 3051
Pages to: 3053
Issue Date: 2015
Publisher / Ed. Institution: Oxford University Press
ISSN: 1367-4803
Language: English
Subjects: Molecular sequence; Profile hidden Markov models; Tandem repeat; Bioinformatics
Subject (DDC): 004: Computer science
572: Biochemistry
Abstract: Motivation: Currently, more than 40 sequence tandem repeat detectors are published, providing heterogeneous, partly complementary, partly conflicting results. Results: We present TRAL, a tandem repeat annotation library that allows running and parsing of various detection outputs, clustering of redundant or overlapping annotations, several statistical frameworks for filtering false positive annotations, and importantly a tandem repeat annotation and refinement module based on circular profile hidden Markov models (cpHMMs). Using TRAL, we evaluated the performance of a multi-step tandem repeat annotation workflow on 547 085 sequences in UniProtKB/Swiss-Prot. The researcher can use these results to predict run-times for specific datasets, and to choose annotation complexity accordingly.
Further description: Erworben im Rahmen der Schweizer Nationallizenzen (
Fulltext version: Published version
License (according to publishing contract): Licence according to publishing contract
Restricted until: 2019-01-01
Departement: Life Sciences and Facility Management
Organisational Unit: Institute of Computational Life Sciences (ICLS)
Appears in collections:Publikationen Life Sciences und Facility Management

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Schaper, E., Korsunsky, A., Pečerska, J., Messina, A., Murri, R., Stockinger, H., Zoller, S., Xenarios, I., & Anisimova, M. (2015). TRAL : tandem repeat annotation library. Bioinformatics, 31(18), 3051–3053.
Schaper, E. et al. (2015) ‘TRAL : tandem repeat annotation library’, Bioinformatics, 31(18), pp. 3051–3053. Available at:
E. Schaper et al., “TRAL : tandem repeat annotation library,” Bioinformatics, vol. 31, no. 18, pp. 3051–3053, 2015, doi: 10.1093/bioinformatics/btv306.
SCHAPER, Elke, Alexander KORSUNSKY, Jūlija PEČERSKA, Antonio MESSINA, Riccardo MURRI, Heinz STOCKINGER, Stefan ZOLLER, Ioannis XENARIOS und Maria ANISIMOVA, 2015. TRAL : tandem repeat annotation library. Bioinformatics. 2015. Bd. 31, Nr. 18, S. 3051–3053. DOI 10.1093/bioinformatics/btv306
Schaper, Elke, Alexander Korsunsky, Jūlija Pečerska, Antonio Messina, Riccardo Murri, Heinz Stockinger, Stefan Zoller, Ioannis Xenarios, and Maria Anisimova. 2015. “TRAL : Tandem Repeat Annotation Library.” Bioinformatics 31 (18): 3051–53.
Schaper, Elke, et al. “TRAL : Tandem Repeat Annotation Library.” Bioinformatics, vol. 31, no. 18, 2015, pp. 3051–53,

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