miRNA analysis with DESeq2
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@064e8563
Last seen 3 days ago
Canada

Enter the body of text here I am trying to compare the seven columns (Herd_name + Cow_number + Udder_quarter + Treatment + Parity + DIM + Lactation_stage) but I keep getting error. Please, what am I doing wrong? I am new to R and DESeq2

dds1 <- DESeqDataSetFromMatrix(countData = cts_mature,
                               colData = coldata,
                               design = ~ Herd_name + Cow_number + Udder_quarter + Treatment + Parity + DIM + Lactation_stage)
Error in checkFullRank(modelMatrix) : 
  the model matrix is not full rank, so the model cannot be fit as specified.
  Levels or combinations of levels without any samples have resulted in
  column(s) of zeros in the model matrix.
mirna DESeq2 • 80 views
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@mikelove
Last seen 6 hours ago
United States

The rest of the message directs you to read the vignette section, have you?

If you have further questions on specifying a valid design, I'd recommend collaborating with a local statistician or someone familiar with specifying linear models in R.

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