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Plos One : Compression of Fastq and Sam Format Sequencing Data, Volume 8

By Michael, Gormley

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Book Id: WPLBN0003945796
Format Type: PDF eBook :
File Size:
Reproduction Date: 2015

Title: Plos One : Compression of Fastq and Sam Format Sequencing Data, Volume 8  
Author: Michael, Gormley
Volume: Volume 8
Language: English
Subject: Journals, Science, Medical Science
Collections: Periodicals: Journal and Magazine Collection
Historic
Publication Date:
Publisher: Plos

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Michael, G. (n.d.). Plos One : Compression of Fastq and Sam Format Sequencing Data, Volume 8. Retrieved from http://ebook.worldlibrary.net/


Description
Description : Storage and transmission of the data produced by modern DNA sequencing instruments has become a major concern, which prompted the Pistoia Alliance to pose the SequenceSqueeze contest for compression of FASTQ files. We present several compression entries from the competition, Fastqz and Samcomp/Fqzcomp, including the winning entry. These are compared against existing algorithms for both reference based compression (CRAM, Goby) and non-reference based compression (DSRC, BAM) and other recently published competition entries (Quip, SCALCE). The tools are shown to be the new Pareto frontier for FASTQ compression, offering state of the art ratios at affordable CPU costs. All programs are freely available on SourceForge. Fastqz : https:/sourceforge.net/projects/fastqz/, fqzcomp : https:/sourceforge.net/projects/ fqzcomp/, and samcomp : https:/sourceforge.net/projects/samcomp/.

 

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