ReadXplorer 2 - detailed read mapping analysis and visualization from one single source

Hilker R, Stadermann KB, Schwengers O, Anisiforov E, Jaenicke S, Weisshaar B, Zimmermann T, Goesmann A (2016)
Bioinformatics 32(24): 3702-3708.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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DOI
URN
urn:nbn:de:0070-pub-29051706
Autor*in
Hilker, Rolf; Stadermann, Kai BerndUniBi ; Schwengers, Oliver; Anisiforov, Evgeny; Jaenicke, Sebastian; Weisshaar, BerndUniBi ; Zimmermann, Tobias; Goesmann, Alexander
Einrichtung
Centrum für Biotechnologie > Graduate Center > Graduate Cluster Industrial Biotechnology
Centrum für Biotechnologie > Arbeitsgruppe B. Weisshaar
Fakultät für Biologie > Genetik und Genomik der Pflanzen
Abstract / Bemerkung
Motivation: The vast amount of already available and currently generated read mapping data re-quires comprehensive visualization, and should benefit from bioinformatics tools offering a wide spec-trum of analysis functionality from just one source. Appropriate handling of multiple mapped reads during mapping analyses remains an issue that demands improvement. Results: The capabilities of the read mapping analysis and visualization tool ReadXplorer were vastly enhanced. Here, we present an even finer granulated read mapping classification, improving the level of detail for analyses and visualizations. The spectrum of automatic analysis functions has been broadened to include genome rearrangement detection as well as correlation analysis between two mapping data sets. Existing functions were refined and enhanced, namely the computation of differ-entially expressed genes, the read count and normalization analysis and the transcription start site (TSS) detection. Additionally, ReadXplorer 2 features a highly improved support for large eukaryotic data sets and a command line version, enabling its integration into workflows. Finally, the new version is now able to display any kind of tabular results from other bioinformatics tools. Availability: http://www.readxplorer.org
Erscheinungsjahr
2016
Zeitschriftentitel
Bioinformatics
Band
32
Ausgabe
24
Seite(n)
3702-3708
ISSN
1367-4803
Page URI
https://pub.uni-bielefeld.de/record/2905170

Zitieren

Hilker R, Stadermann KB, Schwengers O, et al. ReadXplorer 2 - detailed read mapping analysis and visualization from one single source. Bioinformatics. 2016;32(24):3702-3708.
Hilker, R., Stadermann, K. B., Schwengers, O., Anisiforov, E., Jaenicke, S., Weisshaar, B., Zimmermann, T., et al. (2016). ReadXplorer 2 - detailed read mapping analysis and visualization from one single source. Bioinformatics, 32(24), 3702-3708. doi:10.1093/bioinformatics/btw541
Hilker, Rolf, Stadermann, Kai Bernd, Schwengers, Oliver, Anisiforov, Evgeny, Jaenicke, Sebastian, Weisshaar, Bernd, Zimmermann, Tobias, and Goesmann, Alexander. 2016. “ReadXplorer 2 - detailed read mapping analysis and visualization from one single source”. Bioinformatics 32 (24): 3702-3708.
Hilker, R., Stadermann, K. B., Schwengers, O., Anisiforov, E., Jaenicke, S., Weisshaar, B., Zimmermann, T., and Goesmann, A. (2016). ReadXplorer 2 - detailed read mapping analysis and visualization from one single source. Bioinformatics 32, 3702-3708.
Hilker, R., et al., 2016. ReadXplorer 2 - detailed read mapping analysis and visualization from one single source. Bioinformatics, 32(24), p 3702-3708.
R. Hilker, et al., “ReadXplorer 2 - detailed read mapping analysis and visualization from one single source”, Bioinformatics, vol. 32, 2016, pp. 3702-3708.
Hilker, R., Stadermann, K.B., Schwengers, O., Anisiforov, E., Jaenicke, S., Weisshaar, B., Zimmermann, T., Goesmann, A.: ReadXplorer 2 - detailed read mapping analysis and visualization from one single source. Bioinformatics. 32, 3702-3708 (2016).
Hilker, Rolf, Stadermann, Kai Bernd, Schwengers, Oliver, Anisiforov, Evgeny, Jaenicke, Sebastian, Weisshaar, Bernd, Zimmermann, Tobias, and Goesmann, Alexander. “ReadXplorer 2 - detailed read mapping analysis and visualization from one single source”. Bioinformatics 32.24 (2016): 3702-3708.
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Dieses Objekt ist durch das Urheberrecht und/oder verwandte Schutzrechte geschützt. [...]
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