Bioconductor Outlier

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436

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Outlier

updated 13 months ago by ATpoint ★ 4.0k • written 13 months ago by sanchita.bhattacharya • 0

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1.2k

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DESeq2 RNAseq outlier

updated 14 months ago by ATpoint ★ 4.0k • written 14 months ago by James • 0

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1.9k

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RNAseq DESeq2 outlier counts DE analysis

updated 3.9 years ago by Kevin Blighe ★ 3.9k • written 3.9 years ago by DcL-A • 0

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726

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deseq2 outlier normalization removal

updated 4.1 years ago by Michael Love 41k • written 4.1 years ago by knholm • 0

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6.5k

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deseq2 rnaseq PCA hierarchical clustering outlier

7.4 years ago wd ▴ 30

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1.5k

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rnaseq outlier statistics batch effect

updated 7.9 years ago by Gordon Smyth 50k • written 7.9 years ago by grastalt27 • 0

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1.3k

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arrayQualityMetrics Microarray Outlier

updated 8.4 years ago by Wolfgang Huber ★ 13k • written 8.4 years ago by horcsct ▴ 10

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4.5k

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DESeq2 outlier RNASeq

updated 9.4 years ago by Michael Love 41k • written 9.4 years ago by kenneth.daily • 0

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Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

How am i making the data? I am using the DESeq2 output data which I had generated

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k

Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …

Answer: Citation for edgeR user guide by Gordon Smyth 50k

Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You are just making up data? What is the point of this exercise?

Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k

What do you mean by 'the information'? Do you have things in particular that you want?

Votes

Answer: Citation for edgeR user guide

Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)

Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.

Answer: minfi::read.metharray.exp

Comment: Trying to use enrichGO

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