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updated 2.4 years ago by Konstantinos Yeles ▴ 90 • written 2.4 years ago by Sooni ▴ 10

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Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi by ATpoint ★ 4.9k

No, cells from the same donor are correlated due to the donor effect. There is literature on this you should read to get started. https:/…

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi by Raya • 0

Wouldn't each sample in the single cell rna seq act as a biological replicate? each condition (eg: mab3_20C) has ~70 single cell samples.

Comment: Getting way too many DEGs with LRT for time-series RNA-seq! by James W. MacDonald 68k

>Sequential post-exposure measurements of the same set of genes is not the same thing as having multiple treated groups! They are not the…

Comment: Getting way too many DEGs with LRT for time-series RNA-seq! by Denise • 0

Sequential post-exposure measurements of the same set of genes is not the same thing as having multiple treated groups! And I suppose ther…

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi by ATpoint ★ 4.9k

There is no biological replication here. This is not supported by DESeq2 (or mos credible statistical tools). You would need different dono…

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Answer: Are voomByGroup and voomLmFit compatible?

Answer: p-adjusted values in multiple comparisons

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