Bioconductor Recount2

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TCGAbiolinks RECOUNT2 DESeq2

updated 3.6 years ago by Michael Love 43k • written 3.6 years ago by xiaofeiwang18266 ▴ 50

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R TCGA recount2 recount

updated 4.7 years ago by Leonardo Collado Torres ★ 1.1k • written 4.7 years ago by alex.v.nesta • 0

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recount recount2 RangedSummarizedExperiment

updated 5.2 years ago by Leonardo Collado Torres ★ 1.1k • written 6.0 years ago by k.vitting.seerup ▴ 120

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Answer: Deseq2 res Function by Michael Love 43k

> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…

Answer: ANOVA like approach of edgeR by Gordon Smyth 51k

You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…

Answer: Create Illmina bead summary data by Gordon Smyth 51k

GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…

Comment: Help with RSEM counts: do I transpose matrix? by NB • 0

OK thank you.

Comment: Help with RSEM counts: do I transpose matrix? by James W. MacDonald 67k

You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.

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Answer: Deseq2 res Function

Answer: ANOVA like approach of edgeR

Comment: ANOVA like approach of edgeR

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