Bioconductor Sigpathway

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pathway analysis sigpathway Genesets_EntrezGeneIDs.RData

7.4 years ago maria • 0

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sigPathway sigPathway

13.7 years ago Voke AO ▴ 760

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goTools sigPathway topGO goTools sigPathway topGO

updated 15.4 years ago by Michael Dondrup ▴ 550 • written 15.4 years ago by Veerendra GP ▴ 100

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Microarray Annotation sigPathway Microarray Annotation sigPathway

15.7 years ago 山中程 ▴ 10

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sigPathway sigPathway

16.7 years ago Adrian Johnson ▴ 330

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sigPathway sigPathway

17.7 years ago Srinivas Iyyer ▴ 600

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sigPathway sigPathway

updated 18.0 years ago by James W. MacDonald 68k • written 18.0 years ago by Srinivas Iyyer ▴ 600

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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: 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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Popular Question to Peter Hickey ▴ 760