User: evocanres

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evocanres0
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Posts by evocanres

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Comment: C: DESeq results gives all genes
... Thank you. That helped actually. ...
written 6 days ago by evocanres0
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DGE Analysis between 3 conditions
... 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, ...
rnaseq deseq2 written 6 days ago by evocanres0 • updated 6 days ago by Michael Love20k
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DESeq results gives all genes
... 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 ...
deseq2 design matrix results written 8 days ago by evocanres0 • updated 8 days ago by Michael Love20k
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Comment: C: DESeq2 likelihood ratio test (LRT) design - 2 genotypes, 4 time points
... I figured out. In my samplelist i.e readCountcolData, I should have the group as a column.  ...
written 9 days ago by evocanres0
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Comment: A: DESeq2 likelihood ratio test (LRT) design - 2 genotypes, 4 time points
... 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 evocanres0

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