R Dataset / Package lme4 / Arabidopsis

On this R-data statistics page, you will find information about the Arabidopsis data set which pertains to Arabidopsis clipping/fertilization data. The Arabidopsis data set is found in the lme4 R package. You can load the Arabidopsis data set in R by issuing the following command at the console data("Arabidopsis"). This will load the data into a variable called Arabidopsis. If R says the Arabidopsis data set is not found, you can try installing the package by issuing this command install.packages("lme4") and then attempt to reload the data with the library() command. If you need to download R, you can go to the R project website. You can download a CSV (comma separated values) version of the Arabidopsis R data set. The size of this file is about 27,123 bytes.

Arabidopsis clipping/fertilization data

Description

Data on genetic variation in responses to fertilization and simulated herbivory in Arabidopsis

Usage

data("Arabidopsis")

Format

A data frame with 625 observations on the following 8 variables.

reg: region: a factor with 3 levels NL (Netherlands), SP (Spain), SW (Sweden)
popu: population: a factor with the form n.R representing a population in region R
gen: genotype: a factor with 24 (numeric-valued) levels
rack: a nuisance factor with 2 levels, one for each of two greenhouse racks
nutrient: fertilization treatment/nutrient level (1, minimal nutrients or 8, added nutrients)
amd: simulated herbivory or "clipping" (apical meristem damage): unclipped (baseline) or clipped
status: a nuisance factor for germination method (Normal, Petri.Plate, or Transplant)
total.fruits: total fruit set per plant (integer)

Source

From Josh Banta

References

Joshua A. Banta, Martin H. H Stevens, and Massimo Pigliucci (2010) A comprehensive test of the 'limiting resources' framework applied to plant tolerance to apical meristem damage. Oikos 119(2), 359–369; http://dx.doi.org/10.1111/j.1600-0706.2009.17726.x

Examples

data(Arabidopsis)
summary(Arabidopsis[,"total.fruits"])
table(gsub("[0-9].","",levels(Arabidopsis[,"popu"])))
library(lattice)
stripplot(log(total.fruits+1) ~ amd|nutrient, data = Arabidopsis,
groups = gen,
strip=strip.custom(strip.names=c(TRUE,TRUE)),
type=c('p','a'), ## points and panel-average value --
## see ?panel.xyplot
scales=list(x=list(rot=90)),
main="Panel: nutrient, Color: genotype")

Dataset imported from https://www.r-project.org.

Attachments: csv, json

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