User: anver

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anver0
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Germany
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a****@mpipz.mpg.de

Posts by anver

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Answer: A: How to use q.value cutt off in "decideTests" function for RNAseq differential ex
... Thank you very much Aaron. Very much appreciate it. Sha ...
written 2.4 years ago by anver0
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Answer: A: How to use q.value cutt off in "decideTests" function for RNAseq differential ex
... Thank you very much Storey and Aaron. I very appreciate your responses. That clarified my doubts and misconceptions. However I want to get the differentially expressed genes based on the qvalue cutoff along with associated qvalues and fdrs. I use the following code to get the differentially express ...
written 2.4 years ago by anver0
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How to use q.value cutt off in "decideTests" function for RNAseq differential expression analysis
... I am analyzing my RNAseq data with two treatments (mock and trt) with three time points each with three replicates using limma. After model fitting etc I calculated qvalues using qvalue package. Then calculated differentially expressed genes for each contrast. They are higher with qvalue cutoff of 0 ...
rnaseq limma qvalue decidetests written 2.4 years ago by anver0
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Comment: C: Limma model fitting: including and excluding replicates in the model gives diff
... Thank you very much Aaron. It makes sense. Sha ...
written 2.4 years ago by anver0
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Limma model fitting: including and excluding replicates in the model gives different results in RNAseq Analysis
... Hi there, I analyzed my single-end RNA-seq data (Illumina) with limma. I have two treatments (treatment and mock) and three time points (1h, 9h and 24h) each with 3 replicates (total 18 libraries). I tried two models - one including the replicates (Model1) and another excluding the replicates (Mode ...
limma rnaseq_analysis model.matrix written 2.4 years ago by anver0 • updated 2.4 years ago by Aaron Lun17k

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