BFCounter specifications


Unique identifier OMICS_02093
Name BFCounter
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Jonathan K. Pritchard

Publication for BFCounter

BFCounter citation


ntCard: a streaming algorithm for cardinality estimation in genomics data

PMCID: 5408799
PMID: 28453674
DOI: 10.1093/bioinformatics/btw832

[…] or correction (; ), repeat detection (), SNP detection (; ) and RNA-seq quantification analysis (). The problem of counting k-mers has been well studied in the literature, including the Jellyfish (), BFCounter (), DSK () and KMC () algorithms. These tools need considerable computational resources and can be improved in terms of memory, disk space and runtime requirements for processing and obtaini […]

BFCounter institution(s)
Department of Human Genetics, The University of Chicago, Chicago, IL, USA; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA
BFCounter funding source(s)
A grant from the National Institutes of Health: MH084703; the Howard Hughes Medical Institute

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