Bioconductor Batch Effect Correction

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784

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batch effect limma batch effect correction

updated 5.2 years ago by Gordon Smyth 50k • written 5.2 years ago by ginlucks • 0

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748

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pvca batch effect batch effect correction

5.5 years ago Sebastian Hesse ▴ 70

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1.0k

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batch effect correction sva proteomics

5.5 years ago Sebastian Hesse ▴ 70

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1.3k

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deseq2 interactions batch effect correction grouping variable

updated 5.6 years ago by Michael Love 42k • written 5.6 years ago by mat.lesche ▴ 90

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2.1k

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scan.upc upc normalization batch effect correction

updated 5.7 years ago by Stephen Piccolo ▴ 590 • written 5.7 years ago by y.li.1 • 0

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1.6k

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Limma differential gene expression batch effect correction covariates

updated 5.9 years ago by Gordon Smyth 50k • written 5.9 years ago by abelsousa • 0

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3.1k

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DESeq2 sva svaseq batch effect correction

6.3 years ago L_K • 0

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1.2k

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sva svaseq batch effect batch effects batch effect correction

6.7 years ago vedran.franke • 0

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1.0k

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limma voom Batch Effect Correction

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by Dario Strbenac ★ 1.5k

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Comment: EGSEA usage with microarray data (with vooma)? by Chris • 0

Hi Pekka, I also try EGSEA with microarray data. However, I got this error. Would you please have a suggestion? gsa = egsea.ma(numeric…

Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k

> Any suggestions for methylation data segmentation? I think the same segmentation can be used.

Comment: deseq2 results by swbarnes2 ★ 1.3k

Cross-posted https://www.biostars.org/p/9594331/#9594458

Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Mike Smith ★ 6.5k

The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…

Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70

Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.

Votes

A: Volcanoplot with limma - RAW P-values or Adj.P-Values

Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it

Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it

Answer: minfi latest update for EPIC V2 chip

A: Error in DESeqDataSet : some values in assay are not integers

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Teacher to Michael Love 42k