User: michael

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michael0
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Posts by michael

<prev • 5 results • page 1 of 1 • next >
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Comment: C: Question regarding "low counts" in DESeq2
... Great, thanks a lot! ...
written 24 days ago by michael0
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Comment: C: Question regarding "low counts" in DESeq2
... Thank you for the answer. I will have a more detailed look into the vignette and the paper. Already did that but obviously did not get it fully. Please allow me a short question: Are you surprised that there are no genes filtered by “independent filtering” when there seems to be little to no effect ...
written 26 days ago by michael0
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Question regarding "low counts" in DESeq2
... I am performing an analysis for diff. expression on insects. The insects are treated with two doses of an insecticide (let's call them "low" and "high"). The setting of the experiment is the following: - 5 x Control (biological replicates, several individuals pooled per sample) - 5 x exposed to ...
deseq2 written 28 days ago by michael0 • updated 26 days ago by Michael Love26k
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ballgown -- how is statistical test performed
... I have two questions regarding ballgown: 1) Why is ballgown using FPKM for the stat. test and not counts? Is there an advantage or is this historical? 2) I guess ballgown does test transcripts "on an individual level" for differential expression, right? What I mean is: if one gene has two isoforms ...
rna-seq ballgown written 12 weeks ago by michael0
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ballgown: how to test for DE for my experimental setup
... I have the following setup for my rna-seq experiment: 5 samples Control 5 samples 1x concentration of chemical compound 5 samples 10x concentration of chemical compound My workflow is Hisat2 > Stringtie > ballgown Now, for ballgown "stattest", how would you test considering my experimental ...
rna-seq ballgown written 12 weeks ago by michael0

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