Bioconductor Combat SVA

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combat combat sva pamr limma design matrix sva

5.7 years ago jmsendoya • 0

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combat sva batch effect

5.9 years ago Fp • 0

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combat sva

6.1 years ago jonellevillar • 0

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combat combat sva

6.6 years ago Miss Agnieszka Aleksandra Golicz ▴ 40

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combat sva microarry Jeff leek

6.8 years ago DataFanatic ▴ 10

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combat sva sva

7.0 years ago alice.anlind • 0

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SVA combat sva leek

updated 3.0 years ago by chase.mateusiak • 0 • written 7.0 years ago by amoltej ▴ 10

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combat sva input files

7.2 years ago arisarkar88 ▴ 40

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batch effect combat sva sva

7.2 years ago Ahdee ▴ 50

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combat sva

7.5 years ago vinnu260 ▴ 10

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combat sva batch effect comba

updated 7.5 years ago by Vegard Nygaard ▴ 110 • written 7.5 years ago by amoltej ▴ 10

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svaseq combat sva RANseq batcheffect removebatcheffect

updated 7.6 years ago by Jakub ▴ 50 • written 7.6 years ago by amoltej ▴ 10

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combat sva

7.7 years ago kkwon • 0

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affymetrix microarrays sva combat sva batch effect plotMDS

updated 7.7 years ago by Jeff Leek ▴ 650 • written 7.7 years ago by svlachavas ▴ 830

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SVA combat sva batch effect

updated 7.7 years ago by Jeff Leek ▴ 650 • written 7.7 years ago by amoltej ▴ 10

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ENmix combat.mc illumina450k combat sva

7.9 years ago DSP • 0

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combat sva sga combat batch effect

8.1 years ago John Townsend ▴ 20

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combat sva SVA sva ComBat batch effect

updated 8.1 years ago by W. Evan Johnson ▴ 850 • written 8.1 years ago by John Townsend ▴ 20

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R Combat SVA

updated 8.3 years ago by Steve Lianoglou ★ 13k • written 8.3 years ago by nazaninhoseinkhan • 0

19 results • Page 1 of 1

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Answer: Batch effect correction: methylome data by zhouwanding ▴ 10

I agree that the batch variable should be better modeled as a co-variate than explicit batch correction. There is also RUVm (https://www.nc…

Comment: Can I trust the differential expression analysis when the two groups overlap on by Eric Katagirya • 0

Thanks @bioinfguru - I did the 3-D PCA plot ![PC1 vs PC3 plot][1] and also the scree plot ![Scree plot][2] but couldn't make much of the…

Answer: Can log2cpm be used for proteomics data normalization? by James W. MacDonald 65k

The term 'logCPM' is short for log counts/million counts, which is generally only applicable for count-based applications like RNA-Seq. Usu…

Comment: Retrieving ceRNA data from the starBase or ENCORI Web API by James W. MacDonald 65k

This post does not fit the theme of this forum.

Answer: Batch effect correction: methylome data by James W. MacDonald 65k

Unless you are using `DSS`, you shouldn't be using Beta values, but instead should be using M-values. It's not clear to me that you can sim…

Votes

Ensembl 112 has been released.

A: Diffbind results - non uniform width

A: Different logFC (log2foldchange) values for genes from limma-voom and other too

Answer: Error EPICv2 ChAMP

Comment: Store output of matchPWM()

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