User: marie

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marie0
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Posts by marie

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Comment: C: [deseq2] normalization between samples after merging transcripts into genes
... I see. Thank you very much for your response. Yes, it could be possible; there can be a huge difference between the condition. I will discuss with my collaborators and will also search for studies with a similar setting. Actually, this is my first experience observing such an extreme diversity betwe ...
written 3 months ago by marie0
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Comment: C: [deseq2] normalization between samples after merging transcripts into genes
... The actual data is like this: ```sample stage1_treatment1 stage1_treatment2 stage1_treatment2 stage1_treatment3 stage1_treatment2 stage1_treatment3 stage1_treatment2 stage1_treatment1 stage1_treatment3 stage1_treatment3 stage1_treatment3 stage1_treatment3 stage1_treatment1 stage2_treatment1 stage2_ ...
written 3 months ago by marie0
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Comment: C: [deseq2] normalization between samples after merging transcripts into genes
... Thank you for the prompt response. I tried `DESeqDataSetFromTximport` this time, but the last problem remains. **What I was trying to ask is:** I expected the sum of all gene expression in the tximport output is same across the samples, like some other normalization methods, e.g., "all TPMs (trans ...
written 3 months ago by marie0
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[deseq2] normalization between samples after merging transcripts into genes
... Hi, I am trying to do comparative RNA-seq analysis with DESeq2. My purposes are: **1. combine transcripts into genes 2. detect gene expression difference under different conditions 3. obtain a summarized gene expression table** 1. combine transcripts into genes I basically followed these commands ...
deseq2 tximport written 3 months ago by marie0 • updated 3 months ago by Michael Love24k

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