Bioconductor DeSeq2

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DESeq2 coefficient

9 weeks ago • updated 18 hours ago JKim • 0

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DESeq2

updated 16 hours ago by Michael Love 41k • written 1 day ago by HAK • 0

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DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq

updated 2 hours ago by ATpoint ★ 4.1k • written 14 hours ago by james.zhang20 • 0

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DESeq2

updated 16 hours ago by ATpoint ★ 4.1k • written 16 hours ago by angelathuynh5 • 0

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DESeq2

updated 3 hours ago by ATpoint ★ 4.1k • written 14 hours ago by kcarey • 0

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Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k

> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…

Comment: Differences in differential analysis methods for RNA-Seq by james.zhang20 • 0

Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…

Answer: Deseq2 and Normalization of RNA sequencing data by ATpoint ★ 4.1k

There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …

Comment: Differences in differential analysis methods for RNA-Seq by ATpoint ★ 4.1k

MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…

Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by Yveto • 0

Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…

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Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

SPIA plotP giving error

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