User: sarin.heikki.v

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Posts by sarin.heikki.v

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diffSplice: Error in exon.genes[o, , drop = FALSE] : incorrect number of dimensions
... I'm trying to run the exon level analysis RNA-seq data according to: https://www.bioconductor.org/help/course-materials/2014/BioC2014/BioC2014_edgeR_voom.html#/38. . However for some reason after running the diffSplice it gives me the error: Error in exon.genes[o, , drop = FALSE] : incorrect number ...
exon diffsplice edger voom written 2.2 years ago by sarin.heikki.v10 • updated 3 months ago by Gordon Smyth1.0k
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edgeR : How to test differential exon usage on case/control study across all time points when accounting for the within subject variability?
... Hi, So I'm trying to test differential exon usage on case/control study across all time points when accounting for the within subject variability. I know the full and reduced models between which to test with but I'm a bit unsure how to apply it to edgeR. Models: Full: ~condition + time + con ...
model time-course model.matrix edger lrt written 2.2 years ago by sarin.heikki.v10 • updated 11 weeks ago by h.mon27k
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Comment: C: Pipeline for analysing RNA-seq exon level data with lot of samples?
... I think in my case the glmQLFit can't be applied since I'm using glmLRT test and not glmQLFTest. Correct me if I'm wrong. ...
written 2.2 years ago by sarin.heikki.v10
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Pipeline for analysing RNA-seq exon level data with lot of samples?
... Hi, What sort of pipeline would you recommend on doing RNA-seq exon-level analysis for about 100 samples? Our goal is study differential exon expression and splicing in our data. We have case and control groups with three time points and our focus is to study how does the exon expression and spici ...
dexseq deseq2 diffsplice diffsplicedge rna-seq written 2.2 years ago by sarin.heikki.v10

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