Journal
BIOINFORMATICS
Volume 28, Issue 10, Pages 1324-1327Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/bts123
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Funding
- Gordon and Betty Moore Foundation [2629]
- National Institutes of Health [5 T32 HG000044]
- National Science Foundation
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Results: We developed Fulcrum to collapse identical and near-identical Illumina and 454 reads (such as those from PCR clones) into single error-corrected sequences; it can process paired-end as well as single-end reads. Fulcrum is customizable and can be deployed on a single machine, a local network or a commercially available MapReduce cluster, and it has been optimized to maximize ease-of-use, cross-platform compatibility and future scalability. Sequence datasets have been collapsed by up to 71%, and the reduced number and improved quality of the resulting sequences allow assemblers to produce longer contigs while using less memory.
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