Hi, I am trying to put this code into R, but it keeps telling me I have an "unexpected symbol."
phenoData<-read.csv("pheno.txt",header=TRUE,sep="\t")design<-model.matrix(~diagnosis,phenoData)fit<-lmFit(eset,design)
Error: unexpected symbol in "phenoData<-read.csv("pheno.txt",header=TRUE,sep="\t")design"
Try it this way
phenoData <- read.csv("pheno.txt", header=TRUE, sep="\t")
design <- model.matrix(~diagnosis, phenoData)
fit <- lmFit(eset, design)
Hello,
Yes I tried it this way as well but got the following error.
design <- model.matrix(~diagnosis, phenoData)
Error in eval(predvars, data, env) : object 'diagnosis' not found
Hi!
To help us help you, could you please prepare a repr oducible ex ample (reprex) illustrating your issue? Please have a look at this guide, to see how to create one:
A minimal reproducible example consists of the following items:
A minimal dataset, necessary to reproduce the issue
The minimal runnable code necessary to reproduce the issue, which can be run
on the given dataset, and including the necessary information on the used packages.
Let's quickly go over each one of these with examples:
Minimal Dataset (Sample Data)
You need to provide a data frame that is small enough to be (reasonably) pasted on a post, but big enough to reproduce your issue.
Let's say, as an example, that you are working with the iris data frame
head(iris)
#> Sepal.Length Sepal.Width Petal.Length Petal.Width Species
#> 1 5.1 3.5 1.4 0.…
Thank you for the help!
I realized I specified the data in the txt file as something other than "diagnosis", which is why it was unrecognizable.
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system
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April 24, 2020, 9:16pm
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