Bioconductor DGELIst

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520

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DGEList edgeR

12 months ago prity6459 • 0

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870

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edgeR Bioconductor Dseq2 dgelist

updated 2.4 years ago by Gordon Smyth 52k • written 2.4 years ago by Fiona • 0

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1.2k

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factors edgeR setup DGELIst

updated 3.9 years ago by Gordon Smyth 52k • written 3.9 years ago by Alex • 0

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2.3k

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edger DGElist

updated 6.1 years ago by Gordon Smyth 52k • written 6.1 years ago by naser.sadri • 0

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2.1k

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dgelist edger RnaSeqGeneEdgeRQL

updated 6.7 years ago by Gordon Smyth 52k • written 6.7 years ago by Kevin • 0

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2.7k

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edgeR summarizedexperiment dgelist

7.0 years ago aljoscha.leusmann • 0

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1.2k

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tree bootstrap dgelist plotmds

7.1 years ago Larry K. • 0

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2.6k

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edger dgelist NA egsea

updated 7.2 years ago by Gordon Smyth 52k • written 7.2 years ago by belmore • 0

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4.2k

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edger DGEList org.hs.eg.db gene annotation

updated 3.6 years ago by IIart.hubII • 0 • written 7.4 years ago by svlachavas ▴ 840

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3.7k

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egder dgelist group rnaseq

updated 7.5 years ago by Aaron Lun ★ 28k • written 7.5 years ago by fawazfebin ▴ 60

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3.9k

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DGElist filter edgeR

updated 7.8 years ago by Gordon Smyth 52k • written 7.8 years ago by alakatos ▴ 130

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3.0k

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edger raw reads TMM normalised values DGEList differential gene expression

updated 8.7 years ago by Steve Lianoglou ★ 13k • written 8.7 years ago by benedict.ng ▴ 30

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7.4k

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edger subsetting dgelist

updated 8.8 years ago by Gordon Smyth 52k • written 8.8 years ago by mnaymik ▴ 10

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21k

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edgeR row.names DGEList

10.2 years ago ccheung • 0

14 results • Page 1 of 1

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Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0

This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/

Comment: Filtering after DESeq by ATpoint ★ 4.8k

The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …

Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k

All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…

Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k

> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…

Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…

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Answer: DiffBind; Error: No sites have activity greater than filter value

DiffBind; Error: No sites have activity greater than filter value

remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline

How to remove X & Y chromosome genes from RNAseq data

Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?

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