model.pickgene {pickgene} | R Documentation |
The function created a model matrix of orthogonal contrasts to be used by pickgene.
model.pickgene(faclevel, facnames = letters[seq(length(faclevel))], contrasts.fac = "contr.poly", collapse = "+", show = NULL, renorm = 1, modelexpr = formula(paste("~", paste(facnames, collapse = collapse))), contrasts.list = contr.list)
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 facnames |
Creates a model matrix data frame with first column having all 1's and other columns having contrasts.
Result of call to model.matrix
Brian Yandell
model.pickgene(c(2,3), c("sex","genotype"))