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. Author manuscript; available in PMC: 2014 Jan 29.
Published in final edited form as: Stat Biosci. 2012 Jun 29;5(1):3–25. doi: 10.1007/s12561-012-9067-4

Table 1.

Abbreviations

Abbreviation Description (section)
BAM Binary SAM, Sequence Alignment/Map format (Sect. 2.1)
GLF Genotype Likelihood Format (Sects. 2, 3.2.1)
GWAS Genome-wide Association Studies (abstract, Sect. 1)
HTS High Throughput Sequencing (Sect. 1)
Kb Kilobase (Sect. 1)
LD Linkage Disequilibrium (Sects. 1, 3.3.2)
MPS Massively Parallel Sequencing
MS-LD* Multi-Sample Linkage Disequilibrium genotype calling method (Sect. 3.3.2)
MS-SS* Multi-Sample Single-Site genotype calling method (Sect. 3.3.1)
NGS Next Generation Sequencing (Sect. 1)
SAM Sequence Alignment/Map format (Sect. 2.1)
SNP Single Nucleotide Polymorphism
SS* Single-Sample genotype calling method (Sect. 3.2)
VCF Variant Call Format (Sect. 2)