Description Usage Arguments Value Author(s) References See Also Examples

Performs the allelic Transmission/Disequilibrium Test for each SNP contained in a genotype matrix.

1 2 3 4 | ```
allelicTDT(mat.snp, size = 50, correct = FALSE)
## S3 method for class 'aTDT'
print(x, top = 5, digits = 4, ...)
``` |

`mat.snp` |
a numeric matrix in which each column represents a SNP. Each column must be
a numeric vector of length |

`size` |
the number of SNPs considered simultaneously when computing the parameter estimates. |

`correct` |
should the test statistic be continuity corrected? If |

`x` |
an object of class |

`digits` |
number of digits that should be printed. |

`top` |
number of interactions that should be printed. If |

`...` |
ignored. |

An object of class `aTDT`

containing the following numeric vectors:

`stat` |
values of the test statistic of the allelic TDT, |

`pval` |
the corresponding p-values. |

Holger Schwender, holger.schwender@udo.edu

Spielman, R.S., McGinnis, R.E., and Ewens, W.J. (1993). Trsnmmission Test for Linkage Disequilibrium:
The Insulin Gene Region and Insulin-Dependent Diabetes Mellitus (IDDM). *American Journal of Human Genetics*,
52, 506-516.

1 2 3 4 5 6 7 8 9 10 11 12 | ```
# Load the simulated data for the analysis.
data(trio.data)
# Perform an allelic TDT
a.out <- allelicTDT(mat.test)
# By default, the top 5 SNPs are shown.
# Another number of SNPs, e.g., 10, are displayed by
print(a.out, top=10)
# If the results for all SNPs should be shown (or returned), use
print(a.out, top=0)
``` |

```
Allelic TDT
Statistic p-value
1 0.04255 0.83657
2 0.98039 0.32210
3 1.02532 0.31126
4 0.40000 0.52709
5 0.19512 0.65869
6 3.75325 0.05271
Allelic TDT
Statistic p-value
1 0.04255 0.83657
2 0.98039 0.32210
3 1.02532 0.31126
4 0.40000 0.52709
5 0.19512 0.65869
6 3.75325 0.05271
```

trio documentation built on Nov. 8, 2020, 7:41 p.m.

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