User: reubenmcgregor88

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Posts by reubenmcgregor88

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Error in pcaplot3d from pcaExplorer, when running Deseq2 since update of packages
... Hi,  I was plotting 3D PCA's from Desq2 output using simple: > pcaplot3d(ddsMF, intgroup = "donor") I then updated some packages: > install.packages(c("httr", "Matrix", "plotrix", "shape", "shiny", "threejs", "tidyr")) And now the pcaplot3D function returns this error: Error in scatterpl ...
deseq2 pcaexplorer written 19 hours ago by reubenmcgregor880
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Comment: C: DESeq2 multifactorialdesign contrasts
... Thank you Gavin, I see your points, both of them. I am using the most recent DESeq2 version, sorry I should have specified version etc.  However, as far as I can gather, there is something wrong with my design, please bare with me. when I run the original: > dds <- DESeqDataSetFromMatrix(c ...
written 4 days ago by reubenmcgregor880
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DESeq2 multifactorialdesign contrasts
...   Hi all,  I have what may seem like as really simple questions, but being new to using R in general and very new to DEseq2 I just can not figure it out reading the manual (which is great and very informative for a biologist, thanks!) I have a simple design of 3 donors (A, B and C) and 3 conditio ...
rnaseq deseq2 design and contrast matrix multifactorial design written 6 days ago by reubenmcgregor880 • updated 6 days ago by Gavin Kelly250

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