Bioconductor Batch correction

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2.3k

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scrna-seq integration batch correction

updated 5.9 years ago by Aaron Lun ★ 29k • written 5.9 years ago by p.joshi ▴ 40

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1.7k

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methylation ComBat Linear models batch correction AIC

updated 6.0 years ago by Kevin Blighe ★ 4.0k • written 6.0 years ago by lucasmiranda42 • 0

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1.0k

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DESeq2 batch correction

updated 6.1 years ago by James W. MacDonald 68k • written 6.1 years ago by MT ▴ 10

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1.4k

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Diffbind ATAC batch correction blocking factor

updated 6.4 years ago by Rory Stark ★ 5.2k • written 6.4 years ago by rm1238 • 0

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1.4k

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deseq2 differential expression batch correction design

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by wunderl ▴ 40

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2.1k

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deseq2 differential expression batch correction

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by wunderl ▴ 40

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2.6k

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SC3 Scater Scran scRNA-Seq Batch Correction

updated 6.7 years ago by Vladimir Kiselev ▴ 150 • written 6.7 years ago by hamza_karakurt ▴ 60

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Comment: blockwiseModule crashes in the end and doesn't generate modules by gexose2839 • 0

Sounds good. @[time][1] [1]: https://timeduration.github.io

Comment: PFAM formats changed - is it still possible to use this with ISA? by TikTsokaasocissalpc • 0

For mobile gaming enthusiasts, 3 Patti Lucky offers a seamless experience, unlike the frustration Harris faced with incompatible PFAM resul…

Answer: segfault in edgeR glmQLFit by Gordon Smyth 53k

Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. The prob…

Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by aqeel • 0

Discover the pinnacle of Brazilian Jiu Jitsu gear at [Dragon][1] GI. [1]: https://dragongi.com/

Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k

I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…

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C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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