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6.8 years ago
Trying ballgown stattest with covariates = group for my dataset throws me error. Can please solve based on the details below.
Error:
Error in stattest(bg, feature = "transcript", meas = "FPKM", getFC = TRUE, covariate="group") :
There must be at least two replicates per group. Make sure covariate is categorical; if continuous, consider the timecourse option, or specify your own models with mod and mod0.
Following is the dataset:
ids,group
var1,control
var2,sample1
var3,sample2
var4,sample3
var5,sample4
var6,sample5
var7,sample6
var8,sample7
var9,sample8
var10,sample9
var10,sample10
var11,sample11
Can anyone tell me how to design the model for this. ?
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Thank you for your guide.... Looking for support on my question.
I also referred to previous post related to the same question, but there is no proper conclusion.
If you need to add this information edit your original post and add there.
There is a proper conclusion in that post.
There must be at least two replicates per group.
So you don't have biological replicates? The 11 samples are all different?
There must be at least two replicates per group.
Current experiment model is for checking differential expression between control and each samples. What will the appropriate measure in ballgown ?
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to answer to previous reactions, as such this thread remains logically structured and easy to follow. I have now moved your post but as you can see it's not optimal. Adding an answer should only be used for providing a solution to the question asked.Yes. That's really optimal way. i can manage to do further.