# Exact tests for Linkage Disequilibrium and Hardy-Weinberg Equilibrium

### Description

Exact tests for Linkage Disequilibrium (LD) and Hardy-Weinberg Equilibrium (HWE). - 2-sided LD tests based on different measures of LD (Kulinskaya and Lewin 2008) - 1-sided Fisher's exact test for LD - 2-sided Haldane test for HWE (Wiggington 2005) - 1-sided test for inbreeding - conditional p-values proposed in Kulinskaya (2008) to overcome the problems of asymetric distributions (for both LD and HWE)

### Details

Package: | LDtests |

Type: | Package |

Version: | 1.0 |

Date: | 2008-06-07 |

License: | GPL |

`LD2sided.pvals`

calculates LD p-values for the input table
`Fisher1sided`

calculates Fisher's 1-sided p-values for LD for the input table
`HWE2sided`

calculates HWE p-values for the input table
`LD2sided.tables`

calculates LD p-values for an entire null distribution
`HWE2sided.table`

calculates HWE p-values for an entire null distribution

### Author(s)

Alex Lewin Maintainer: Alex Lewin <a.m.lewin@imperial.ac.uk>

### References

Kulinskaya and Lewin 2008

### Examples

1 2 3 4 5 6 7 | ```
ctable <- c(4,5,1,20)
LD2sided.tables(ctable)
LD2sided.pvals(ctable)$pval.Fish
Fisher1sided(ctable)$pval.Fish
HWE2sided.table(maf=0.17,n=100)
geno <- c(20,73,7)
HWE2sided(geno)
``` |

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