NanoPack: visualizing and processing long-read sequencing data

Wouter De Coster; Svenn D'Hert; Darrin T Schultz; Marc Cruts; Christine Van Broeckhoven

doi:10.1093/bioinformatics/bty149

NanoPack: visualizing and processing long-read sequencing data

Bioinformatics. 2018 Aug 1;34(15):2666-2669. doi: 10.1093/bioinformatics/bty149.

Authors

Wouter De Coster¹, Svenn D'Hert², Darrin T Schultz³, Marc Cruts¹, Christine Van Broeckhoven¹

Affiliations

¹ Neurodegenerative Brain Diseases Group, VIB & University of Antwerp, Antwerp, Belgium.
² Bioinformatics, Neuromics Support Facility, Center for Molecular Neurology, VIB & University of Antwerp, Antwerp, Belgium.
³ Department of Biomolecular Engineering and Bioinformatics, University of California Santa Cruz, Santa Cruz, CA, USA.

Abstract

Summary: Here we describe NanoPack, a set of tools developed for visualization and processing of long-read sequencing data from Oxford Nanopore Technologies and Pacific Biosciences.

Availability and implementation: The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, together with links to separate scripts and their documentation. The scripts are compatible with Linux, Mac OS and the MS Windows 10 subsystem for Linux and are available as a graphical user interface, a web service at http://nanoplot.bioinf.be and command line tools.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Escherichia coli / genetics
High-Throughput Nucleotide Sequencing / methods*
Sequence Analysis, DNA / methods*
Software*