model.pickgene {pickgene} | R Documentation |

## Create Model Matrix for Orthogonal Contrasts

### Description

The function created a model matrix of orthogonal contrasts to be
used by pickgene.

### Usage

model.pickgene( faclevel, facnames = <<see below>>,
contrasts.fac = "contr.poly", collapse = "+", show = <<see below>>,
renorm = 1, modelexpr = <<see below>>, contrasts.list = <<see below>> )

### Arguments

`faclevel` |
vector with number of levels for each factor |

`facnames` |
vector of factor names (default = "a","b",...) |

`contrasts.fac` |
vector of contrast types |

`collapse` |
"+" for additive model, "*" for full model with interactions |

`show` |
vector of contrast numbers to show (default is all) |

`renorm` |
vector to renormalize contrasts (e.g. use `sqrt(2)`
to turn two-condition contrast into fold change) |

`modelexpr` |
model formula |

`contrasts.list` |
list of contrasts indexed by index{facnames} |

### Details

Creates a model matrix data frame with first column having all 1's and
other columns having contrasts.

### Value

Result of call to model.matrix

### Author(s)

Brian Yandell

### See Also

`model.matrix`

### Examples

model.pickgene( c(2,3), c("sex","genotype"))

[Package

*pickgene* version 1.0.0

Index]