User: ahmedaalkarim

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Posts by ahmedaalkarim

<prev • 6 results • page 1 of 1 • next >
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Comment: C: importing Tximport to DESeq2 for a time series experiment
... sorry Micheal, it gives me this message  when I run the following code > dds <- DESeqDataSetFromTximport(txi, sampleTable,formula(~Condition+Time+Condition:Time)) Error in checkFullRank(modelMatrix) :    the model matrix is not full rank, so the model cannot be fit as specified.   Levels o ...
written 7 months ago by ahmedaalkarim0
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importing Tximport to DESeq2 for a time series experiment
... Dear all, my time series experiment; I exposed my plant to light and harvest after 6 time points (0, 0.5, 2, 4. 8, 10h), therefore, I have the effect of the conditions  (light), the Time, and the interaction (light+time). I used SALMON and then Tximport. my question is what is the correct command li ...
deseq2 tximport written 7 months ago by ahmedaalkarim0 • updated 7 months ago by Michael Love24k
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Comment: C: what is the correct command line to import my txi data file as a deseq2 dataset
... Dear Micheal, unfortunately, the command line does not work. Maybe I will need to make myself clear. I need to  import my txi data file for deseq2, because I need to do quality assessment and latter deferential gene analyses. I use the following command  dds <- DESeqDataSetFromTximport(txi, samp ...
written 7 months ago by ahmedaalkarim0
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Comment: A: what is the correct command line to import my txi data file as a deseq2 dataset
... Dear Micheal, unfortunately, the command line does not work. Maybe I will need to make myself clear. I need to  import my txi data file for deseq2, because I need to do quality assessment and latter deferential gene analyses. I use the following command  dds <- DESeqDataSetFromTximport(txi, samp ...
written 7 months ago by ahmedaalkarim0
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Comment: A: what is the correct command line to import my txi data file as a deseq2 dataset
... Thanks Micheal for your help Regards ...
written 7 months ago by ahmedaalkarim0
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what is the correct command line to import my txi data file as a deseq2 dataset in a time series experiment
... Dear all, my time series experiment; I exposed my plant to light and harvest after 6 time points (0, 0.5, 2, 4. 8, 10h), therefore, I have the effect of the conditions  (light), the Time, and the interaction (light+time). I used SALMON and then Tximport. my question is what is the correct command li ...
deseq2 written 7 months ago by ahmedaalkarim0

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