poRe: an R package for the visualization and analysis of nanopore sequencing data

Mick Watson; Marian Thomson; Judith Risse; Richard Talbot; Javier Santoyo-Lopez; Karim Gharbi; Mark Blaxter

poRe: an R package for the visualization and analysis of nanopore sequencing data

Mick Watson, Marian Thomson, Judith Risse, Richard Talbot, Javier Santoyo-Lopez, Karim Gharbi, Mark Blaxter

Research output: Non-textual form › Software

Abstract / Description of output

MOTIVATION: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a suite of tools specifically for MinION data.

RESULTS: Here we present poRe, a package for R that enables users to manipulate, organize, summarise and visualize MinION nanopore sequencing data. As a package for R, poRe has been tested on Windows, Linux and MacOSX. Crucially, the Windows version allows users to analyse MinION data on the Windows laptop attached to the device Availability and implementation: poRe is released as a package for R at http://sourceforge.net/projects/rpore/. A tutorial and further information is available at https://sourceforge.net/p/rpore/wiki/Home/ CONTACT: mick.watson@roslin.ed.ac.uk SUPPLEMENTARY DATA: Further figures and information on the FAST5 data format are available in the supplementary data.

Original language	English
Publication status	Published - Jan 2015

Access to Document

https://github.com/mw55309/poRe_docs

Ark Genomics
Watson, M., Archibald, A. & Burt, D.
BBSRC
1/04/12 → 31/03/17
Project: Research
Analysis and prediction in complex animal systems
Woolliams, J.
BBSRC
1/04/12 → 31/03/17
Project: Research

Cite this

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title = "poRe: an R package for the visualization and analysis of nanopore sequencing data",

abstract = "MOTIVATION: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a suite of tools specifically for MinION data.RESULTS: Here we present poRe, a package for R that enables users to manipulate, organize, summarise and visualize MinION nanopore sequencing data. As a package for R, poRe has been tested on Windows, Linux and MacOSX. Crucially, the Windows version allows users to analyse MinION data on the Windows laptop attached to the device Availability and implementation: poRe is released as a package for R at http://sourceforge.net/projects/rpore/. A tutorial and further information is available at https://sourceforge.net/p/rpore/wiki/Home/ CONTACT: mick.watson@roslin.ed.ac.uk SUPPLEMENTARY DATA: Further figures and information on the FAST5 data format are available in the supplementary data.",

author = "Mick Watson and Marian Thomson and Judith Risse and Richard Talbot and Javier Santoyo-Lopez and Karim Gharbi and Mark Blaxter",

year = "2015",

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TY - ADVS

T1 - poRe

T2 - an R package for the visualization and analysis of nanopore sequencing data

AU - Watson, Mick

AU - Thomson, Marian

AU - Risse, Judith

AU - Talbot, Richard

AU - Santoyo-Lopez, Javier

AU - Gharbi, Karim

AU - Blaxter, Mark

PY - 2015/1

Y1 - 2015/1

N2 - MOTIVATION: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a suite of tools specifically for MinION data.RESULTS: Here we present poRe, a package for R that enables users to manipulate, organize, summarise and visualize MinION nanopore sequencing data. As a package for R, poRe has been tested on Windows, Linux and MacOSX. Crucially, the Windows version allows users to analyse MinION data on the Windows laptop attached to the device Availability and implementation: poRe is released as a package for R at http://sourceforge.net/projects/rpore/. A tutorial and further information is available at https://sourceforge.net/p/rpore/wiki/Home/ CONTACT: mick.watson@roslin.ed.ac.uk SUPPLEMENTARY DATA: Further figures and information on the FAST5 data format are available in the supplementary data.

AB - MOTIVATION: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a suite of tools specifically for MinION data.RESULTS: Here we present poRe, a package for R that enables users to manipulate, organize, summarise and visualize MinION nanopore sequencing data. As a package for R, poRe has been tested on Windows, Linux and MacOSX. Crucially, the Windows version allows users to analyse MinION data on the Windows laptop attached to the device Availability and implementation: poRe is released as a package for R at http://sourceforge.net/projects/rpore/. A tutorial and further information is available at https://sourceforge.net/p/rpore/wiki/Home/ CONTACT: mick.watson@roslin.ed.ac.uk SUPPLEMENTARY DATA: Further figures and information on the FAST5 data format are available in the supplementary data.

M3 - Software

ER -

poRe: an R package for the visualization and analysis of nanopore sequencing data

Abstract / Description of output

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Projects

Ark Genomics

Analysis and prediction in complex animal systems

Cite this