Bioconductor Batch correction

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1.5k

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scrna-seq integration batch correction

updated 4.3 years ago by Aaron Lun ★ 28k • written 4.3 years ago by p.joshi ▴ 40

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977

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methylation ComBat Linear models batch correction AIC

updated 4.4 years ago by Kevin Blighe ★ 3.9k • written 4.4 years ago by lucasmiranda42 • 0

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613

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DESeq2 batch correction

updated 4.5 years ago by James W. MacDonald 65k • written 4.5 years ago by MT ▴ 10

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948

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Diffbind ATAC batch correction blocking factor

updated 4.7 years ago by Rory Stark ★ 5.2k • written 4.7 years ago by rm1238 • 0

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999

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deseq2 differential expression batch correction design

updated 4.9 years ago by Michael Love 41k • written 4.9 years ago by wunderl ▴ 40

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1.3k

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deseq2 differential expression batch correction

updated 4.9 years ago by Michael Love 41k • written 4.9 years ago by wunderl ▴ 40

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1.8k

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SC3 Scater Scran scRNA-Seq Batch Correction

updated 5.1 years ago by Vladimir Kiselev ▴ 150 • written 5.1 years ago by hamza_karakurt ▴ 50

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Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by Chris • 0

Intent to delete when going home. Sorry for that!

Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k

Please ask you own question. Inserting your own dataset into someone else's question like this is very impolite. I have already answered m…

Comment: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …

Comment: package goseq seems to be not available on the latest version of R by Patrycja ▴ 20

limma package also isn't available.Is there any information when these packages will be available?

Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by Chris • 0

Thanks Gordon for the advice!

Votes

Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-

Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-

Handling multiple differential expression comparisons

Answer: fgsea significant result

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