Bioconductor Factor

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912

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factor DESeq2 MultipleComparison

updated 3.2 years ago by swbarnes2 ★ 1.4k • written 3.2 years ago by diegocastano182 • 0

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1.0k

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Factor Levels Dispersionestimates DESeq2

3.2 years ago rafaelsolersanblas ▴ 50

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1.9k

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deseq2 levels factor colData

updated 5.9 years ago by Michael Love 43k • written 5.9 years ago by ariel ▴ 20

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1.9k

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genomicranges RaggedExperiment coercion logical factor

updated 7.2 years ago by Marcel Ramos 700 • written 7.2 years ago by Taran • 0

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4.0k

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deseq2 deseq factor rnaseq

updated 7.5 years ago by Peter Langfelder ★ 3.0k • written 7.5 years ago by sup230 ▴ 30

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2.1k

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genomicranges seqnames factor

8.3 years ago wcstcyx ▴ 30

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966

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R overrrepresentation factor variable factor enrichment

8.3 years ago IOM ▴ 20

7 results • Page 1 of 1

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Answer: Unable to find sample sheet file for ChAMP methylation data analysis by James W. MacDonald 67k

There is an example file in the extdata directory of the `minfiData` package that you could emulate.

Comment: Rain error: invalid annotation of time points by Dominik • 0

Hi, I kept running into the same issue until I double checked their help and understood, that columns and rows have to be designed in anoth…

Answer: How to generate circular cnetplot and color nodes and edges in the same plot ? by Guido Hooiveld ★ 4.1k

Since the release of `enrichplot` of October 2024, the code of the function `cnetplot` has been completely rewritten by Guangchuang in orde…

Comment: CUT&Tag differential peak analysis using Diffbind, with pre-calculated normaliza by mec25 • 0

I am unable to find the math behind the dba.normalize(), for instance when the E-coli fraction is used is the signal mutliplied by the fact…

Comment: How to sort negative log2FC or FC in RNAseq for GSEA? by Quang NN ▴ 10

Thank you so much for taking time to provide this clarification!

Votes

Answer: DESeq2- merging technical vs biological replicates

Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

Answer: EdgeR Biological CVs

Answer: Error in download.file for TCGAutils::symbolsToRanges

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