Bioconductor Timeseriesexperiment

Showing : timeseriesexperiment • reset

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1.9k

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R GillespieColin ArrayExpress import TimeSeriesExperiment

updated 7 months ago by jacorvar ▴ 40 • written 18 months ago by eraldagjika ▴ 20

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1.7k

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LRT Design DESeq2 doseResponse TimeSeriesExperiment

updated 2.7 years ago by Michael Love 41k • written 2.7 years ago by Mari • 0

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960

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QTL fourier TimeSeriesExperiment timecoursedata

3.1 years ago Daphne • 0

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912

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Proteomics limma repeatedmeasures TimeSeriesExperiment

18 months ago proteome_AO • 0

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811

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TimeSeriesExperiment Regression top limma

updated 2.7 years ago by James W. MacDonald 65k • written 2.7 years ago by Eleni • 0

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798

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TimeSeriesExperiment RNASeq design DESeq2

updated 2.4 years ago by Michael Love 41k • written 2.4 years ago by Kesava • 0

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791

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TimeSeriesExperiment

updated 3.0 years ago by Michael Love 41k • written 3.0 years ago by curiousmind007 ▴ 10

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772

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DESeq2 single-timeseries TimeSeriesExperiment

updated 19 months ago by Michael Love 41k • written 19 months ago by Jigyasa • 0

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643

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DESeq2 MultipleFactors TimeSeriesExperiment

updated 20 months ago by Michael Love 41k • written 20 months ago by Maria • 0

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626

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DESeq2 TimeSeriesExperiment

updated 19 months ago by Michael Love 41k • written 19 months ago by Jason • 0

10 results • Page 1 of 1

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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0

Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …

Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …

Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k

This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…

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Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-

Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

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