Bioconductor Cpm filtering

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cpm filtering transcriptomics rnaseq edgeR metatranscriptomics

updated 5.6 years ago by Gordon Smyth 52k • written 5.6 years ago by vm.higareda ▴ 10

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Comment: DiffBind can't find a DAR by ATpoint ★ 4.8k

"My cake does not look as advertised in the recipe", with this sloppy sentence I hope you understand that you need to give people details, …

Comment: DESeq - help with pair wise comparisons by bd2000 ▴ 30

Follow up question, is this the correct way to extract results? ```r results <- results(ddsObj, list(c("GroupControl.Followup", "GroupTrea…

Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ktz • 0

Thank you for your reply! I would love to know your thoughts on the plots I've included above. > 'Are the differences between groups lar…

Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ktz • 0

I also realised that the other gene I pointed out that was flagged as DE but had similar count differences also shows that rep1 is lower th…

Comment: DESeq - help with pair wise comparisons by bd2000 ▴ 30

Thanks that's great!! I've followed the instructions from the link you sent, is my code correct? By correct I mean, is my code comparing fo…

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Comment: DESeq - help with pair wise comparisons

Answer: SingleR with multiple single cell references

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