Bioconductor Coldata

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526

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ColData pheatmap DESeq2

written 9 months ago by dania.khalid • 0

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974

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SingleCellExperiment colData rename

updated 14 months ago by Basti ▴ 750 • written 14 months ago by achoppe ▴ 10

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564

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BiSeq Coldata

3.9 years ago akhaira • 0

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1.4k

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deseq2 levels factor colData

updated 5.1 years ago by Michael Love 41k • written 5.1 years ago by ariel ▴ 20

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41k

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deseq2 coldata

updated 5.4 years ago by swbarnes2 ★ 1.3k • written 5.4 years ago by mjrarcher ▴ 10

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3.1k

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variantannotation coldata

updated 5.5 years ago by Valerie Obenchain ★ 6.8k • written 5.6 years ago by lvclark ▴ 10

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3.5k

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deseq2 coldata NA

updated 5.7 years ago by Michael Love 41k • written 5.7 years ago by t.kuilman ▴ 170

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1.4k

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multiassayexperiment colData

updated 6.4 years ago by Levi Waldron ★ 1.1k • written 6.4 years ago by Lluís Revilla Sancho ▴ 730

8 results • Page 1 of 1

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Comment: Interaction Terms in DESeq2 - Shrinkage by Michael Love 41k

Yes, apeglm requires relevel and nbinomWaldTest to generate the coefficient estimate and its SE. Alternatively you can use ashr with a con…

Comment: A ComBat-seq issue: the covariates are confounded by schlumbohm • 0

Dear ATpoint, thank you for the comment. I did correct the question. For the group, I did accidentally share the input for all three batch…

Comment: Memory errors using read.bismark? by Peter Hickey ▴ 690

If you process serially (i.e. with `BPPARAM = SerialParam()`) then you might be okay. The final object will be on the order of 250 GB in-me…

Answer: blockwiseModule crashes in the end and doesn't generate modules by xaweh28128 • 0

Test your word skills and see if you can crack the code in today's Wordle puzzle. [Nytimes wordle](https://wordlenytimes.net/quordle-game/)…

Comment: Memory errors using read.bismark? by Juan Higareda • 0

Thanks for the answer. Actually, processing one file and keeping it in memory wasn't the problem, is more processing all the 15 files to bu…

Votes

Comment: Not fully paired differential gene expression analysis

Comment: [DiffBind] Obtaining normalization factors

Answer: ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with var

Comment: Not fully paired differential gene expression analysis

Answer: GSVA error

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