User: mario.keller.1988

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Posts by mario.keller.1988

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Truncated Gviz plot
... Hi, I have a little aesthetic issue with my sashimi plots. ![enter image description here][1]. In all of my plots the sashimi numbers of the exon skipping event are cropped although there is enough space. Has someone experienced the same problem and knows a solution? I already changed all paramet ...
gviz sashimi plot written 8 months ago by mario.keller.19880 • updated 7 months ago by Robert Ivanek640
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Comment: A: DESeq2 for DE analysis in developmental stages of tomato pollen
... Thank you very much for your answers. What I still do not get is this part: Essentially, any truly global changes across stage is normalized away But I see between stage 3 and stage 1 around 10,400 downregulated, 4,250 upregulated and 1,350 not DE genes. Aren't this global changes and not normalize ...
written 2.2 years ago by mario.keller.19880
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Comment: A: DESeq2 for DE analysis in developmental stages of tomato pollen
... I'm not sure if I understand you correctly. Should I trust the DESeq2 results or not? The housekeeping gene I checked was never tested along the development of pollen so I am not sure if I can draw any conclusions from it. ...
written 2.2 years ago by mario.keller.19880
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DESeq2 for DE analysis in developmental stages of tomato pollen
... Hey guys, I have the following scenario. We performed MACE experiments (like RNA-seq but you produce only one read per transcript) for three developmental stages of tomato pollen (3 biological replicates for each stage). On the one hand I produced RPM values for all genes by normalizing simply for ...
normalization deseq2 de written 2.2 years ago by mario.keller.19880

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