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- Zexuan Zhu <>
No open topic.
(Zhang et al., 2015)
Light-weight reference-based compression of FASTQ data.
PMID: 26051252 DOI: 10.1186/s12859-015-0628-7
(Huang et al., 2017)
LW-FQZip 2: a parallelized reference-based compression of FASTQ files.
College of Computer Science and Software Engineering, Shenzhen University, Shenzhen, China; The Broad Institute, Cambridge, MA, USA; School of Computer Science, University of Birmingham, Birmingham, UK
This work was supported in part by the National Natural Science Foundation of China (61471246 and 61205092), Guangdong Foundation of Outstanding Young Teachers in Higher Education Institutions (Yq2013141), Shenzhen Scientific Research and Development Funding Program (JCYJ20130329115450637, KQC201108300045A and ZYC201105170243A) and Guangdong Natural Science Foundation (S2012010009545).
1 user review
1 user review
I tried this tool but the compression doesn't seem to be that great.
I could compress the example fastq of 31M was to 8.6M. This is exactly the same size as if you would use gzip on this file. Using bzip2 the file size is reduced even further to 7.3M.
Additionally when I tried to compress my own fastq files (human) I got he error 'error genome file size'. After solving this issue in a hard coded way, I got a buffer overflow using the LWFQZip -c command.