corn: A datasets relatead to gene expression in corn

In pbiecek/PBImisc: A Set of Datasets Used in My Classes or in the Book 'Modele Liniowe i Mieszane w R, Wraz z Przykladami w Analizie Danych'

Description

Dataset from the book ,,Modele liniowe i mieszane w R, wraz z przykladami w analizie danych”.

Usage

data(corn)

Format

data.frame with 5339 obs. and 36 variables

A dataset with expression of 5339 genes. Each column corresponds to a single experiment. Column name codes the setup of experiment. For example DH.C.1 is related to line DH in the condition C and it is a first technical replicate of this set of conditions.

Note that a noise injection was added to this data, in order to obtain the original dataset please contact with the package maintainer.

Details

Dataset from the book ,,Modele liniowe i mieszane w R, wraz z przykladami w analizie danych”.

Used as an example of modeling of data from expression microarrays with the use of models with mixed effects.

Examples

## Not run: 

require(lme4)

names <- colnames(corn)
X <- t(matrix(unlist(strsplit(names, ".", fixed=T)), 3, 36))
X <- data.frame(X)
colnames(X) <- c("spec", "temp", "plant")

summary(X)

y <- corn[4662,]
lmer(y~spec*temp + (1|plant:spec:temp), data=X)


## End(Not run)

pbiecek/PBImisc documentation built on May 24, 2019, 10:35 p.m.