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EdgeR normalization fastq txt TMM

updated 2.8 years ago by Gordon Smyth 52k • written 9.3 years ago by hamidrezarazzaghian • 0

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Affymetrix CEL TXT

updated 5.2 years ago by James W. MacDonald 68k • written 5.2 years ago by pbachali ▴ 50

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read.table TXT

updated 5.3 years ago by James W. MacDonald 68k • written 5.3 years ago by ekl • 0

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Annotation GEO TXT

updated 5.3 years ago by Sean Davis 21k • written 5.3 years ago by ekl • 0

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Files TXT

updated 5.3 years ago by Gordon Smyth 52k • written 5.3 years ago by ekl • 0

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qPCRset object nondetects r package txt

updated 16 months ago by Nat.Nataren • 0 • written 7.1 years ago by s.m.may • 0

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r TXT codelink

9.6 years ago Agaz Hussain Wani ▴ 260

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Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

Answer: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

I strongly recommend to not concern yourself with these sorts of marginal problems because you're entering a realm in which you're entirely…

Comment: Problem using locateVariants() from the VariantAnnotation package by Marco • 0

Ok, I think I found the problem. By looking at the `locateVariants()` source code, I was able to pinpoint that the problems is when trying …

Comment: Conumee for EPIC and EPICv2 copy number by Adam • 0

As described on the [github](https://github.com/hovestadtlab/conumee2) the way to do this is using array_type = c("EPIC", "EPICv2") This i…

Comment: graper 1.22 Build is Broken by shepherl 4.1k

This is not an appropriate place to report this. this is for usage questions. maintainers are notified automatically when it is failing on …

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A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

Answer: Vertical line at A=0, nothing else, on MA plot

Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

Answer: Group-specific condition effects with individuals nested: matrix is not full ra

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