User: musa

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musa10
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1 year, 3 months ago
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6 years, 1 month ago
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Posts by musa

<prev • 5 results • page 1 of 1 • next >
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Comment: C: DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced mode
... That worked. Thanks. ...
written 17 months ago by musa10
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Comment: C: DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced mode
... I want to test if the ribosome release score in M1 is different from A1 ( (Ribo A 1/mRNA A 1)/(Ribo M 1/mRNA M 1). I was just testing the systemPipeR workflow as described in there and that was the design. ...
written 17 months ago by musa10
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Answer: A: DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced mode
... Hi Michael, Thanks for your response This is how I created the dds dds=DESeqDataSetFromMatrix(countData=as.matrix(y[,rownames(coldata)]),colData=coldata,design=~assay+condition:condition) with coldata as is in the email above. I have looked at the vignette but can't figure out the source or wha ...
written 17 months ago by musa10
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DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
... Hi Michael, I am trying to use the DESseq package to estimate ribosome loading efficiency as described in "systemPipeR Workflow for Ribo-Seq and polyRibo-Seq Experiments".   But I have run into some problems that I can't understand the genesis i.e.   "Error in nbinomLRT(object, full = full, red ...
deseq2 systempiper tutorial written 17 months ago by musa10
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Help strange GSEA error
... Hi Chris, Did you ever get to solve this problem? I'd be interested in knowing how you solved it since am having exactly the same problem. Musa ...
written 6.2 years ago by musa10

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