Bioconductor Blocking

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677

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voom blocking limma

updated 6 months ago by Gordon Smyth 50k • written 6 months ago by Gerhard Thallinger ▴ 180

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689

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edgeR blocking

updated 2.9 years ago by Yunshun Chen ▴ 840 • written 2.9 years ago by Molly • 0

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1.3k

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edger limma paired blocking ruvseq

updated 3.9 years ago by Gordon Smyth 50k • written 3.9 years ago by ScA • 0

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1.9k

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limma repeated measurements blocking random effects

updated 4.1 years ago by Gordon Smyth 50k • written 4.1 years ago by Jane ▴ 10

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914

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diffbind blocking model

updated 3.4 years ago by Rory Stark ★ 5.1k • written 4.5 years ago by melnuesch ▴ 10

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3.6k

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limma edger blocking paired samples

updated 5.4 years ago by Gordon Smyth 50k • written 5.4 years ago by anou ▴ 10

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802

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diffbind differential binding analysis blocking

updated 6.2 years ago by Rory Stark ★ 5.1k • written 6.3 years ago by zhangly811 • 0

7 results • Page 1 of 1

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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…

Answer: Differentially expressed genes in monocle pseudotime by Gordon Smyth 50k

You might try the methods in this paper: Cheng J, Smyth GK*, Chen Y* (2023). Unraveling the timeline of gene expression: A pseudotempora…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Thank you Michael for your attention to my question. I am truly grateful. I subsetted the data using lines of codes to include only the g…

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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