Bioconductor Batch correction

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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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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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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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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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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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978

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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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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

7 results • Page 1 of 1

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Answer: Method to find pathways different between 2 groups by Gordon Smyth 50k

> When I search camera limma on pubmed, I found 2 papers I don't follow your point. limma's camera method has been formally cited in nea…

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: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k

Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…

Comment: DNAString: Standard checksum function? by Henrik Bengtsson ★ 2.4k

For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…

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

Handling multiple differential expression comparisons

Answer: fgsea significant result

package goseq seems to be not available on the latest version of R

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Scholar to ATpoint ★ 4.1k