Bioconductor Plotma

Showing : plotma • reset

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plotMA ggplot2 plotPCA DESeq2

updated 14 months ago by Michael Love 43k • written 14 months ago by sara.jacobson • 0

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757

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matrixsubset DESeq2 plotMA

updated 3.6 years ago by Michael Love 43k • written 3.6 years ago by l.troxler ▴ 10

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deseq2 plotMA rnaseq community analysis asymmetry

updated 4.8 years ago by Michael Love 43k • written 4.8 years ago by chaco001 • 0

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1.1k

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agilent single channel plotMA background correction

updated 6.5 years ago by Gordon Smyth 52k • written 6.5 years ago by CantExitVIM ▴ 10

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1.2k

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deseq2 plotMA rnaseq logfoldchange

updated 6.7 years ago by Michael Love 43k • written 6.7 years ago by ap_vc21 • 0

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3.2k

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deseq2 plotma

7.2 years ago Yvan Wenger ▴ 50

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rstudio r plotMA

7.5 years ago g.k • 0

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5.0k

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deseq2 rnaseq plotMA deseq rna-seq

updated 8.7 years ago by Michael Love 43k • written 8.7 years ago by sjs0282 • 0

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4.1k

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limma plotMA

updated 9.3 years ago by Gordon Smyth 52k • written 9.3 years ago by Lisa Cohen ▴ 50

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2.6k

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normalization deseq2 plotMA meanSDplot

9.3 years ago aravenscraft • 0

10 results • Page 1 of 1

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Comment: Crossover design with limma by SamGG ▴ 360

IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…

Answer: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

You don't need any of these files. You need the `catchSalmon` function which reads `quant.sf` and the inferential (Bootstrap/Gibbs) replica…

Comment: makeContrastsDream for Interaction by abadgerw • 0

Thank you! I will try this out.

Comment: Merge Replicates vs Mixed Model by abadgerw • 0

Thanks, @gabrielhoffman The data is actually proteomics so it is intensity data which is why I did not use voom but rather ran ebayes wi…

Comment: ANOVA like approach of edgeR by Gordon Smyth 52k

To identify common upregulated or downregulated genes, you would need to test for media condition contrasts for each cell type separately, …

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Comment: ANOVA like approach of edgeR

Comment: Crossover design with limma

Answer: DESeq2 normalization vs VST vs rlog

Comment: makeContrastsDream for Interaction

Answer: Limma- Print-tip loess normalisation-printer layout information does not match M

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Popular Question to Marek Gierlinski ▴ 30

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