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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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Answer: Seeking Advice on HTA 2.0 Microarray Data Processing with Oligo Package by James W. MacDonald 68k

As an example ``` > library(GEOquery) > library(oligo) > library(limma) > library(affycoretools) ## you need this package to annota…

Comment: EuroBioC2023 abstract submission is open! by ht • 0

Great news about EuroBioC2023 abstract submissions! This is an excellent opportunity to share cutting-edge research. Speaking of cutting-ed…

Comment: orgDB by shepherl 4.1k

You should look at the documentation on the help pages for those packages. It should be clear enough there. But to speed things along: `…

Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by Harry • 0

It's interesting to see how the normalization factors are all 1, yet the MA plot reflects changes, indicating that the normalization proces…

Comment: European Bioconductor Conference 2023 planning by Andrew • 0

Great information! This is a great opportunity for the computational biology community to connect and grow. @[Chill Guy Clicker][1] [1…

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Calculating TOM in blockwise WGCNA

A: What is the "linear model" part used for in Limma?

Comment: Use of limma R package with targeted proteomics for DE analysis

A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

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