Bioconductor EDA

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EDA pcaExplorer PCAtools PCA

updated 24 months ago by Miguel ▴ 10 • written 3.3 years ago by k.vitting.seerup ▴ 120

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deseq2 eda sva rna-seq

updated 7.3 years ago by Bernd Klaus ▴ 610 • written 7.3 years ago by g.atla ▴ 10

2 results • Page 1 of 1

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Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by samer • 0

By applying the log2 transformation to the raw counts of small RNAS AND after adding 1 to each count, the resulting values often approximat…

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by samer • 0

and sometimes in other count plots we observe a difference between the counts of the 2 conditions (ON/OFF) where it should be significant b…

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by ATpoint ★ 3.6k

What is `Log2 Counts + 1`? Please show code for the plots. And please remove the comments and move everything to the toplevel question usin…

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by samer • 0

However, when examining the count plots, I've observed a frequent occurrence of significant adjusted p-values between conditions particular…

Comment: Can the limma package be applied to Log2 RUV-normalized data? by Shaimaa Gamal • 0

I see. Do you recommend a certain method to get norm.factors through calcNormFactors function espcially if the downstream analysis includes…

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