Bioconductor R update

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bioconductor biocgenerics ubuntu package updates r update

8.0 years ago siinemselvi • 0

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clusterprofiler package installation r update

updated 8.5 years ago by tjiagoM ▴ 10 • written 8.5 years ago by klv2706w ▴ 10

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r update upgrade bioclite

updated 9.0 years ago by James W. MacDonald 68k • written 9.0 years ago by Lna • 0

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r update

updated 10.3 years ago by Martin Morgan 25k • written 10.3 years ago by filip.roudnicky • 0

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biocinstaller r update

10.6 years ago meeta.mistry ▴ 30

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upgrade r update

updated 10.6 years ago by Dan Tenenbaum ★ 8.2k • written 10.6 years ago by daniil.sarkisyan ▴ 10

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R update

updated 11.0 years ago by James W. MacDonald 68k • written 11.0 years ago by AJC ▴ 10

7 results • Page 1 of 1

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Comment: Getting a large intercept with DESeq2 by Michael Love 43k

Thanks James -- Denise you can check the "note on factor levels" in the vignette. And I'd recommend `plotCounts()` for looking at individu…

Comment: Getting a large intercept with DESeq2 by James W. MacDonald 68k

As a trivial example, consider this: ``` > model.matrix(~Treatment, data.frame(Treatment = factor(rep(1:3, each = 4)))) (Intercept) Tre…

Answer: Getting a large intercept with DESeq2 by James W. MacDonald 68k

The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …

Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C by ATpoint ★ 5.0k

There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…

Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k

Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…

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Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif

Using edgeR or DESeq2 to analyze allele-specific expression?

Answer: DESeq2 design for haplotype MPRA

Answer: Failure to download resources (MeSHDb) from AnnotationHub

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