Bioconductor ExperimentalDesign

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284

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hypothesisTesting contrastCoding edger ExperimentalDesign expressionDifferences

updated 4 months ago by Gordon Smyth 48k • written 4 months ago by Hannes • 0

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406

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RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign

updated 12 months ago by ATpoint ★ 3.4k • written 12 months ago by Mohamed ▴ 20

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856

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ExperimentalDesign RNASeq DifferentialExpression DESeq2

updated 16 months ago by Michael Love 40k • written 16 months ago by Aurélien • 0

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650

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SingleCellExperiment scater ExperimentalDesign scran

19 months ago msn • 0

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989

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ChIPSeq DiffBind ExperimentalDesign

2.6 years ago • updated 2.5 years ago SFn • 0

5 results • Page 1 of 1

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Answer: ukb Chromosomal position information was converted into SNPS by James W. MacDonald 63k

In my work, we almost always convert RSIDs to chr:pos because the former is ambiguous and changing whereas the latter is not. Which is like…

Comment: T.fit function of maSigPro returns error message by hanna.g • 0

Addition to the issue above: the T.fit function works only when choosing the step.method = "forward", for whatever reason. Maybe this clue …

Answer: Deseq2, enrichGO and ensembl ID by James W. MacDonald 63k

1. There isn't a keytype alternative. You need the gene IDs. 2. Convert the `rownames` of your 'se' object, or the `rownames` of your `D…

Comment: Doubts regarding Pathview by loyedbend2811 • 0

I thoroughly enjoyed reading your essay, and it was quite beneficial to me. Please join me in [monopoly online][1] if you have the time. …

Comment: ukb Chromosomal position information was converted into SNPS by wenbo • 0

Hi, I downloaded uk biobank data, but I don't know how to use R to convert chromosome position information to rs

Votes

Answer: MDS plot edgeR

A: legend with gradient in ComplexHeatmap

Comment: comparing contrasts in edger/lima using makeContrasts function

Answer: comparing contrasts in edger/lima using makeContrasts function

Answer: Differential expression analysis with only FPKM matrix available from total newb

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