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Comment: DiffBind full library size not reliable
by
ATpoint
★ 4.2k
I am not exactly sure how the k parameter works, I never use it, but I agree, realignment without it and filter for MAPQ > 0 makes sense. M…
Comment: Optimizing CPM Calculation for Varied RNA-seq Data
by
ATpoint
★ 4.2k
Without TMM (or similar) normalization it is likely that you get compositional artifacts. I would always use it. Also, your problem is the …
Answer: Optimizing CPM Calculation for Varied RNA-seq Data
by
Gordon Smyth
51k
If you wish to perform DE analyses using the samples then you should perform TMM normalization. Whether or not the samples are diverse or s…
Comment: featureCounts error: Assertion `numOfBuckets > 0' failed
by
Jessica
• 0
Thank-you so much!
Comment: DESeq2: How to Compare the Condition Effects of Two Different Treatments?
by
BioNovice247
• 0
Great! Thank you very much for all your help. Much appreciated!
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Answer: DESeq2: How to Compare the Condition Effects of Two Different Treatments?
Answer: DESeq2: How to Compare the Condition Effects of Two Different Treatments?
Comment: DESeq2: How to Compare the Condition Effects of Two Different Treatments?
Answer: EBImage Rendering of a DelayedArray Object
Answer: Deseq2 Paired Samples Design
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