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bio-differential-expression-batch-correction

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Remove batch effects from RNA-seq data using ComBat, ComBat-Seq, limma removeBatchEffect, and SVA for unknown batch variables. Use when correcting batch effects in expression data.

When to use

• correcting batch effects in expression data
• removing batch effects from raw count data
• removing batch effects from normalized data
• producing batch-corrected expression for visualization
• accounting for batch effects during DE testing
• correcting for unknown batch effects
• integrating surrogate variables into DESeq2
• visualizing batch effects

When not to use

• differential expression analysis without batch correction

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