Bioconductor Fold change

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7.8k

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R deseq2 edger differential gene expression fold change

updated 3.8 years ago by ATpoint ★ 5.0k • written 7.6 years ago by Beginner ▴ 60

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3.2k

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diffBind Fold Change

updated 4.8 years ago by Joe Nicholas • 0 • written 7.1 years ago by joseluis.ruiz • 0

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2.0k

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edger differential expression genes fold change

updated 6.6 years ago by Aaron Lun ★ 29k • written 6.6 years ago by ilovesuperheroes1993 • 0

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1.5k

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mfuzz fold change log2 STANDARDISATION

7.6 years ago prakashpandey1111 • 0

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2.0k

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ballgown stattest fold change

updated 7.9 years ago by James W. MacDonald 68k • written 7.9 years ago by Arindam ▴ 80

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1.9k

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logfc limma fold change

updated 9.5 years ago by Gordon Smyth 53k • written 9.5 years ago by Claudia ▴ 10

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3.4k

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edgeR DE analysis fold change cpm

updated 9.5 years ago by Ryan C. Thompson ★ 7.9k • written 9.5 years ago by Sara ▴ 20

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Comment: Which preprocessing steps are needed before running limpa? by miro165sabo • 0

Hi @gordonsmyth, thank you a lot for very fast and valuable response. I edited the question to provide more details.

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?

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Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

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Scholar to Gordon Smyth 53k

Popular Question to Peter Hickey ▴ 760