Bioconductor Batch Correction

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1.9k

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scrna-seq integration batch correction

updated 5.0 years ago by Aaron Lun ★ 28k • written 5.0 years ago by p.joshi ▴ 40

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1.3k

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methylation ComBat Linear models batch correction AIC

updated 5.1 years ago by Kevin Blighe ★ 4.0k • written 5.1 years ago by lucasmiranda42 • 0

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782

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DESeq2 batch correction

updated 5.1 years ago by James W. MacDonald 67k • written 5.1 years ago by MT ▴ 10

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1.2k

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Diffbind ATAC batch correction blocking factor

updated 5.4 years ago by Rory Stark ★ 5.2k • written 5.4 years ago by rm1238 • 0

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1.1k

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deseq2 differential expression batch correction design

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by wunderl ▴ 40

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1.7k

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deseq2 differential expression batch correction

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by wunderl ▴ 40

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2.1k

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SC3 Scater Scran scRNA-Seq Batch Correction

updated 5.8 years ago by Vladimir Kiselev ▴ 150 • written 5.8 years ago by hamza_karakurt ▴ 60

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Answer: Newbie Question - adding metadata to an analysis by James W. MacDonald 67k

See [Section 4][1]. But do note that you do not need for the `phenoData` slot to contain the data. You can simply have a 'targets' data.fra…

Comment: Want numbers in DESeq to be seen as numerical, not categorical by swbarnes2 ★ 1.4k

How did you import the data? Did you accidently leave in `stringAsFactors=True`? But I'm not entirely sure that you don't want that to be…

Comment: MissMethyl failed to use gometh function for EPICv2 by James W. MacDonald 67k

By version 1.38.0, I mean version 1.38.0 of `MissMethyl`.

Answer: MissMethyl failed to use gometh function for EPICv2 by James W. MacDonald 67k

You need to [upgrade to the release version of Bioconductor][1]. You have version 1.38.0 installed which indicates that you are using the p…

Comment: EuroBioC2023 abstract submission closing soon! by Jeremy • 0

Thanks for the reminder! If you're a Bioconductor user or developer, make sure to [tabs][1] submit your abstract by the deadline, Monday, A…

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Comment: Theoretical WGCNA Question

Answer: Is it possible to work with DESeq2 where data is not properly matched for sex a

Comment: Comparing different method for DESEQ2

Answer: How do I fix an odd voom plot in a combined dataset?

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Scholar to Michael Love 43k