User: Marc

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Marc0
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Posts by Marc

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Comment: C: DeSeq2 Question - Reading Sample Table to DESeqDataSet
... > dim(colData2) [1] 6 1 > dim(sampleTable3) [1] 205342      6 ...
written 11 months ago by Marc0
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Comment: C: DeSeq2 Question - Reading Sample Table to DESeqDataSet
... > ddsFullCountTable <- DESeqDataSetFromMatrix(countData = sampleTable3, colData = colData2, design = ~ Treatment) Error in if (assays_nrow != rowData_nrow) { : argument is of length zero I have never seen this error before, colData columns match sampleTable rows. The only column in colData is ...
written 11 months ago by Marc0
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Comment: C: DeSeq2 Question - Reading Sample Table to DESeqDataSet
... I have done that, however, when I run the DESeqDataSetfromMatrix with my counts as part of matrix (row=gene names, columns=samples) and colData as metadata. I get back an Error - some values in assay are not integers. The count numbers are XX.XXX (example format). Suggestions? ...
written 11 months ago by Marc0
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DeSeq2 Question - Reading Sample Table to DESeqDataSet
... I am trying to read in a Sample Table into DeSeq2, where the first column is all my gene names and the row names are my individual samples and their corresponding counts. Can anyone tell me the best way to build the DESeqDataSet? ...
deseq2 written 11 months ago by Marc0 • updated 11 months ago by Michael Love23k

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