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LAVA

NGS-based genotyping algorithm for a set of SNP loci. Takes advantage of matching of mid-size k-mers (with k

Topic

Biology, Genetics

Details

Operation: Genotyping
Software interface: Command-line interface
Language: C
Operating system: Linux, Mac OS X
License: The MIT licence

Cost

Version name: -

Credit: Ariya Shajii, Deniz Yorukoglu, Yun William Yu, Bonnie Berger
Contact: bab at mit.edu
Collection: -

Publications

Shajii A, Yorukoglu D, William Yu Y, Berger B "Fast genotyping of known SNPs through approximate k-mer matching." Bioinformatics 2016; 32(17):i538-i544 https://doi.org/10.1093/bioinformatics/btw460
PMID: 27587672
PMCID: PMC5013917

Download and documentation

Source: https://github.com/arshajii/lava/
Home page: http://cb.csail.mit.edu/cb/lava/

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