Bioconductor Volcano plot

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DiffBind volcano plot software error

6.3 years ago rbronste ▴ 60

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1.6k

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volcano plot rna seq

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by adeler001 • 0

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2.0k

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Volcano plot Parameters

updated 8.4 years ago by Gordon Smyth 53k • written 8.4 years ago by Sanches • 0

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1.7k

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limma volcano plot

updated 8.8 years ago by Gordon Smyth 53k • written 8.8 years ago by yul • 0

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volcano plot edgr

9.0 years ago elena.capel ▴ 10

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1.6k

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microarray limma volcano plot

updated 11.3 years ago by Gordon Smyth 53k • written 11.3 years ago by jyoti_cad • 0

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Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k

I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0

Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…

Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0

Hello, I was also wondering about the same issue. Did you figure it out?

Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2 by colinmccornack • 0

FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…

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Answer: Subsetting data verses contrasts [DESeq2]?

A: WGCNA differences two groups 10 replicates each group

A: WGCNA sample size minimum: why?

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name

Answer: Can you colour dendrogram branch clusters in pheatmap?

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Popular Question to Peter Hickey ▴ 760