Bioconductor Batch Effect Correction

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780

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batch effect limma batch effect correction

updated 5.1 years ago by Gordon Smyth 50k • written 5.1 years ago by ginlucks • 0

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742

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pvca batch effect batch effect correction

5.4 years ago Sebastian Hesse ▴ 70

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1.0k

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batch effect correction sva proteomics

5.4 years ago Sebastian Hesse ▴ 70

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1.2k

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deseq2 interactions batch effect correction grouping variable

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by mat.lesche ▴ 90

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2.0k

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scan.upc upc normalization batch effect correction

updated 5.7 years ago by Stephen Piccolo ▴ 590 • written 5.7 years ago by y.li.1 • 0

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1.6k

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Limma differential gene expression batch effect correction covariates

updated 5.9 years ago by Gordon Smyth 50k • written 5.9 years ago by abelsousa • 0

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3.1k

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DESeq2 sva svaseq batch effect correction

6.3 years ago L_K • 0

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1.2k

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sva svaseq batch effect batch effects batch effect correction

6.7 years ago vedran.franke • 0

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1.0k

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limma voom Batch Effect Correction

updated 7.0 years ago by Aaron Lun ★ 28k • written 7.0 years ago by Dario Strbenac ★ 1.5k

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Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0

Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…

Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40

1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…

Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0

Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …

Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

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Answer: Dominance Index for Shotgun Metagenomics Data

Answer: Math expression in shapeCustom legend in EnhancedVolcano

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

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