User: evocanres
evocanres • 0
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Posts by evocanres
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C: DESeq results gives all genes
... Thank you. That helped actually.
...
written 6 days ago by
evocanres • 0
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... Hi,
I have datasets for 3 different conditions["WT", "KO", "KO1"] (each with 3 replicates). [and two time points["0" and "12"]].
To use in DESeq, I have constructed a DSElist, with design ~ group where group has 6 levels.
dds <- DESeqDataSetFromMatrix(countData = readCount,
...
written 6 days ago by
evocanres • 0
• updated 6 days ago by
Michael Love ♦ 20k
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... Hi,
I would appreciate any suggestions. I have three genotypes and two treatments.
kable(readCountColData)
sampleList |genotype |timePoint |group |
|:----------|:--------|:---------|:------|
|WT_0_1 |WT |0 |WT_0 |
|WT_0_2 |WT |0 |WT_0 |
|WT_0_3 |WT ...
written 8 days ago by
evocanres • 0
• updated 8 days ago by
Michael Love ♦ 20k
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... I figured out. In my samplelist i.e readCountcolData, I should have the group as a column.
...
written 9 days ago by
evocanres • 0
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... Hi,
I would appreciate any help. I am having an error with
DESeqDataSetFromMatrix
here is my code
group <- paste(readCountColData$genotype, readCountColData$timePoint, sep = "_")
group <- factor(group)
ddsReadCount <- DESeqDataSetFromMatrix(countData = readCount,
...
written 9 days ago by
evocanres • 0
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