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deep Tools: a flexible platform for exploring deep-sequencing data

MPG-Autoren

Ramírez,  Fidel
Max Planck Society;

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Dündar,  Friederike
Department of Chromatin Regulation, Max Planck Institute of Immunobiology and Epigenetics, Max Planck Society;

Diehl,  Sarah
Max Planck Society;

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Manke,  Thomas
Department of Epigenetics, Max Planck Institute of Immunobiology and Epigenetics, Max Planck Society;

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Zitation

Ramírez, F., Dündar, F., Diehl, S., Grüning, B. A., & Manke, T. (2014). deep Tools: a flexible platform for exploring deep-sequencing data. Nucleic Acids Research, 42, W187-W191.


Zitierlink: https://hdl.handle.net/11858/00-001M-0000-002B-8887-5
Zusammenfassung
We present a Galaxy based web server for processing and visualizing deeply sequenced data. The web server's core functionality consists of a suite of newly developed tools, called deepTools, that enable users with little bioinformatic background to explore the results of their sequencing experiments in a standardized setting. Users can upload pre-processed files with continuous data in standard formats and generate heatmaps and summary plots in a straight-forward, yet highly customizable manner. In addition, we offer several tools for the analysis of files containing aligned reads and enable efficient and reproducible generation of normalized coverage files. As a modular and open-source platform, deepTools can easily be expanded and customized to future demands and developments. The deepTools webserver is freely available at http://deeptools.ie-freiburg.mpg.de and is accompanied by extensive documentation and tutorials aimed at conveying the principles of deep-sequencing data analysis. The web server can be used without registration. deepTools can be installed locally either stand-alone or as part of Galaxy.