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Article

Sparse Project VCF: efficient encoding of population genotype matrices.

Bioinformatics (Oxford, England) - 1 Apr 2021

Lin Michael F, Bai Xiaodong, Salerno William J, Reid Jeffrey G

Abstract excerpt

SUMMARY: Variant Call Format (VCF), the prevailing representation for germline genotypes in population sequencing, suffers rapid size growth as larger cohorts are sequenced and more rare variants are discovered. We present Sparse Project VCF (spVCF), an evolution of VCF with judicious entropy reduction and run-length encoding, delivering >10× size reduction for modern studies with practically minimal information...

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PMID: 33300997
DOI: 10.1093/bioinformatics/btaa1004
PMCID: PMC8016461

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