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Fulcrum | Condensing redundant reads from high-throughput sequencing studies

Identifies and groups identical and near-identical reads. Fulcrum is a read collapser that returns a single consensus sequence. The software aims to simplify the problem of comparing N reads in a dataset to every other read in the set. It was designed to speed de novo sequencing and assembly efforts in which an N ×N comparison of reads is necessary, and can also be used as a first step in read mapping for polymorphism detection.

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Fulcrum classification

Fulcrum specifications

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Alternative name:
Fulcrum Read Collapser
Command line interface
Biological technology:
Illumina, Roche
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Fulcrum distribution


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Fulcrum support


  • Erik Lehnert <>


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Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA

Funding source(s)

Supported by Gordon and Betty Moore Foundation (#2629), National Institutes of Health (5 T32 HG000044); National Science Foundation (Graduate Research Fellowship).

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