Journal
BIOINFORMATICS
Volume 26, Issue 14, Pages 1699-1703Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btq268
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Funding
- Wellcome Trust [077200/Z/05/Z]
- Medical Research Council
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Motivation: Existing sequence assembly editors struggle with the volumes of data now readily available from the latest generation of DNA sequencing instruments. Results: We describe the Gap5 software along with the data structures and algorithms used that allow it to be scalable. We demonstrate this with an assembly of 1.1 billion sequence fragments and compare the performance with several other programs. We analyse the memory, CPU, I/O usage and file sizes used by Gap5.
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