mpcalcld: Calculate linkage disequilibrium between all pairs of markers
Description
Calculate linkage disequilibrium for multiple
multi-allelic measures, including Lewontin's D, W, and
correlation.
Arguments
object
Object of class mpcross
Value
Original object with additional component ld consisting
of separate matrices for each different measure.
- W
- Related to Chi-square test for independence
(measure of non-centrality)
- LewontinD
- Lewontin's
D' statistic
- delta2
- Delta-squared statistic
- r2
- Correlation between markers
References
Zhao H, Nettleton D, Soller M and JCM Dekkers (2005)
Evaluation of linkage disequilibrium measures between
multi-allelic markers as predictors of linkage
disequilibrium between markers and QTL. Genet Res Camb
86:77-87.