Fulcrum: Condensing Redundant Reads From High-Throughput Sequencing Studies
Bioinformatics(2012)
摘要
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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关键词
Supplementary information,Bioinformatics online,single error-corrected sequence,Ultra-high-throughput sequencing,single machine,assembly complication,PCR clone,available MapReduce cluster,BSD-like license,Parallel Python library
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