LAVA specifications


Unique identifier OMICS_12714
Name Lightweight Assignment of Variant Alleles
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A reference genome, a list of SNPs, and a set of reads.
Input format FASTA, UCSC's txt
Output data Some predicted genotypes for those SNPs (wild-type, heterozygous, homozygous mutant).
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Requirements GCC, make
Maintained Yes



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  • person_outline Bonnie Berger <>

LAVA article

LAVA institution(s)
Department of Electrical & Computer Engineering, Boston University, Boston, MA, USA; Computer Science and AI Lab, Massachusetts Institute of Technology, Cambridge, MA, USA; Department of Mathematics, Massachusetts Institute of Technology, Cambridge, MA, USA
LAVA funding source(s)
Supported by the National Institutes of Health (NIH) R01GM108348; the Fannie and John Hertz Foundation; HHMI; and IBM.

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