Test for differential expression between 2 groups
Now that you have an ExpressionSet object and a design matrix, you can fit and test your model with limma.
Den här övningen är en del av kursen
Differential Expression Analysis with limma in R
Övningsinstruktioner
The ExpressionSet object eset with the leukemia data and the design matrix you just created (design) have been loaded in your workspace.
Fit the model coefficients with
lmFit.Calculate the t-statistics with
eBayes.Summarize the results with
decideTests.Since it doesn't make sense to test the intercept term, specify the coefficient
"Diseasestable"when runningdecideTests.
Interaktiv övning med praktiskt arbete
Testa den här övningen genom att slutföra den här exempelkoden.
# Load package
library(limma)
# Fit the model
fit <- ___(eset, ___)
# Calculate the t-statistics
fit <- ___(fit)
# Summarize results
results <- ___(fit[, "___"])
summary(results)