Bioconductor Batch correction

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2.2k

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scrna-seq integration batch correction

updated 5.7 years ago by Aaron Lun ★ 29k • written 5.7 years ago by p.joshi ▴ 40

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1.6k

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methylation ComBat Linear models batch correction AIC

updated 5.8 years ago by Kevin Blighe ★ 4.0k • written 5.8 years ago by lucasmiranda42 • 0

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937

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DESeq2 batch correction

updated 5.8 years ago by James W. MacDonald 68k • written 5.8 years ago by MT ▴ 10

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1.3k

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Diffbind ATAC batch correction blocking factor

updated 6.1 years ago by Rory Stark ★ 5.2k • written 6.1 years ago by rm1238 • 0

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1.3k

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deseq2 differential expression batch correction design

updated 6.2 years ago by Michael Love 43k • written 6.3 years ago by wunderl ▴ 40

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2.0k

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deseq2 differential expression batch correction

updated 6.3 years ago by Michael Love 43k • written 6.3 years ago by wunderl ▴ 40

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2.5k

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SC3 Scater Scran scRNA-Seq Batch Correction

updated 6.5 years ago by Vladimir Kiselev ▴ 150 • written 6.5 years ago by hamza_karakurt ▴ 60

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Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by abaed • 0

Thank you so much for your helpful response! I have a follow-up question regarding preprocessing of the count matrix. Should steps like ge…

Comment: readDNAStringSet with non DNA characters by Aidan ▴ 60

I would try to avoid converting to and from `character` objects, you'll lose the main point of having objects as `XString`/`XStringSet`. `…

Comment: DESeq2 interactions by James W. MacDonald 68k

While it looks correct, that response came from a spam bot.

Comment: How to left_join a tidySummarizedExperiment with a GRanges object by seqnames an by Kateřina • 0

Thank you so much!

Answer: readDNAStringSet with non DNA characters by ATpoint ★ 4.9k

See `?readDNAStringSet` which will tell that for DNAStringSet only valid characters are allowed. You can use `BStringSet` (`readBStringSet(…

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Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design

Answer: How to left_join a tidySummarizedExperiment with a GRanges object by seqnames an

Answer: Limpa Pipeline Order

A: How barcode-plot enrichment is calculated?

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