Manipulation of FASTQ data with Galaxy
D Blankenberg, A Gordon, G Von Kuster… - …, 2010 - academic.oup.com
Bioinformatics, 2010•academic.oup.com
Here, we describe a tool suite that functions on all of the commonly known FASTQ format
variants and provides a pipeline for manipulating next generation sequencing data taken
from a sequencing machine all the way through the quality filtering steps. Availability and
Implementation: This open-source toolset was implemented in Python and has been
integrated into the online data analysis platform Galaxy (public web access: http://usegalaxy.
org; download: http://getgalaxy. org). Two short movies that highlight the functionality of tools …
variants and provides a pipeline for manipulating next generation sequencing data taken
from a sequencing machine all the way through the quality filtering steps. Availability and
Implementation: This open-source toolset was implemented in Python and has been
integrated into the online data analysis platform Galaxy (public web access: http://usegalaxy.
org; download: http://getgalaxy. org). Two short movies that highlight the functionality of tools …
Abstract
Summary: Here, we describe a tool suite that functions on all of the commonly known FASTQ format variants and provides a pipeline for manipulating next generation sequencing data taken from a sequencing machine all the way through the quality filtering steps.
Availability and Implementation: This open-source toolset was implemented in Python and has been integrated into the online data analysis platform Galaxy (public web access: http://usegalaxy.org; download: http://getgalaxy.org). Two short movies that highlight the functionality of tools described in this manuscript as well as results from testing components of this tool suite against a set of previously published files are available at http://usegalaxy.org/u/dan/p/fastq
Contact: james.taylor@emory.edu; anton@bx.psu.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
Oxford University Press