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AMI rstudio server

updated 8.0 years ago by shepherl 4.1k • written 8.0 years ago by Thomas Sandmann ▴ 90

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Comment: Heatmap of rnaseq data with z-score scale by Paul Harrison ▴ 110

There can be considerable differences between datasets just due to different handling, sequencing method, batch effects, etc etc, and this …

Comment: Memory issue while using "quickcluster" and "computeSumFactors" functions on sin by ATpoint ★ 4.8k

What is lac cells? You mean 7000-9000 cells? Please check first that the function runs OOM even without any of these multicore options set.…

Comment: parameters of filterByExpr by caroline.zanchi ▴ 10

It worked, I think I finally understand and accept that fact. Sorry and thank you again !

Comment: parameters of filterByExpr by Gordon Smyth 52k

You seem to be coming back to the same fixed (but incorrect) idea of what filterByExpr() should be doing. I have tried to explain that filt…

Answer: edgeR in DMR mode - replicates give batch effect - how to build design matrix wi by Gordon Smyth 52k

modelMatrixMeth() works correctly. The second replicate factor has not been lost. Please do not make ad hoc manual modifications to the de…

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Comment: Heatmap of rnaseq data with z-score scale

Answer: parameters of filterByExpr

Comment: Heatmap of rnaseq data with z-score scale

Answer: LogFC values in edgeR - w/wo intercept

How to formulate 2 factor nested design in DESeq2

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Popular Question to Konstantinos Yeles ▴ 80