In knausb/GAPIT3documentation: Documentation for GAPIT3

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GAPIT3documentation glossary

BLINK Bayesian-information and Linkage- disequilibrium Iteratively Nested Keyway.

cBLUP and sBLUP compressed best linear unbiased predictor.

CMLM compressed mixed linear model.

CV Covariate variables (fixed effects) such as population structure represented by the Q matrix (subpopulation proportion) or principal components (PCs).

EMMA efficient mixed model association.

EMMAX expedited efficient mixed model association.

Enriched CMLM Enriched, compressed mixed linear model.

FarmCPU Fixed and random model Circulating Probability Unification.

G Genotype data in HapMap format.

gBLUP Genomic Best Linear Unbiased Prediction

genomic BLUP / gBLUP genomic Best Linear Unbiased Predictor

GD Genotype data in numeric format.

GI

GLM General linear model

GM Genotype map for numeric format.

GS genomic prediction and selection.

GWAS Genome-wide association studie.

HapMap format

Heritability

KI Kinship matrix - a sample by sample matrix where the cells describe the relationship among samples and high values represent similar samples. Random effects.

MAS marker assisted selection.

MLM mixed linear model.

MLMM Multiple locus mixed linear model. (Forward and backward stepwise regression.)

Numeric format

P3D population parameters previously determined.

Q Population structure.

SNP single-nucleotide polymorphism.

SUPER Settlement of mixed linear model Under Progressively Exclusive Relationship.

sBLUP Settlement of mixed linear model Under Progressively Exclusive Relationship best linear unbiased predictor. (SUPER gBLUP.)

Y Phenotypic matrix - a sample by trait matrix. Sample names occur in the first column, traits begin in the second column.

knausb/GAPIT3documentation documentation built on Sept. 24, 2022, 11:38 a.m.