Provides users the necessary utility functions to generate permutation-based QQ plots and also estimate inflation factor based on the empirical NULL distribution. While it has general utility, it is particularly helpful when the skewness of the Fisher's Exact test in sparse data situations with imbalanced case-control sample sizes renders the reliance on the uniform chi-square expected distribution inappropriate.

Author | Slave Petrovski and Quanli Wang |

Date of publication | 2016-10-09 09:15:16 |

Maintainer | Quanli Wang <quanli@stat.duke.edu> |

License | GPL (>= 2) |

Version | 1.0.1 |

**estlambda2:** Estimate the inflation factor for a distribution of observed...

**example.data:** An example collapsing data matrix and the associated...

**example.Ps:** Distributions of expected and observed P-values from the...

**igm.get.pvalues:** The permutation-based empirical NULL distribution of P-values...

**igm.read.data:** Read sample file and genotype collapsing matrix in IGM...

**QQperm:** QQperm: A package for permutation-based QQ plots and...

**qqplot:** QQ plot of observed P-values vs expected P-values, using the...

**toy.data:** An example collapsing data matrix and the associated...

QQperm

QQperm/NAMESPACE

QQperm/demo

QQperm/demo/example.R

QQperm/demo/00Index

QQperm/data

QQperm/data/example.Ps.RData

QQperm/data/toy.data.RData

QQperm/data/example.data.RData

QQperm/R

QQperm/R/IGM.R
QQperm/R/data.R
QQperm/R/QQ.R
QQperm/R/QQperm.R
QQperm/MD5

QQperm/DESCRIPTION

QQperm/man

QQperm/man/QQperm.Rd
QQperm/man/igm.get.pvalues.Rd
QQperm/man/qqplot.Rd
QQperm/man/example.data.Rd
QQperm/man/toy.data.Rd
QQperm/man/igm.read.data.Rd
QQperm/man/example.Ps.Rd
QQperm/man/estlambda2.Rd
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