Bioconductor DGELIst

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399

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DGEList edgeR

8 months ago prity6459 • 0

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797

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edgeR Bioconductor Dseq2 dgelist

updated 2.0 years ago by Gordon Smyth 52k • written 2.0 years ago by Fiona • 0

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1.1k

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factors edgeR setup DGELIst

updated 3.6 years ago by Gordon Smyth 52k • written 3.6 years ago by Alex • 0

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2.1k

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edger DGElist

updated 5.7 years ago by Gordon Smyth 52k • written 5.7 years ago by naser.sadri • 0

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1.9k

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dgelist edger RnaSeqGeneEdgeRQL

updated 6.4 years ago by Gordon Smyth 52k • written 6.4 years ago by Kevin • 0

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2.4k

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edgeR summarizedexperiment dgelist

6.7 years ago aljoscha.leusmann • 0

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1.1k

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tree bootstrap dgelist plotmds

6.8 years ago Larry K. • 0

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2.5k

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edger dgelist NA egsea

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by belmore • 0

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4.0k

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edger DGEList org.hs.eg.db gene annotation

updated 3.2 years ago by IIart.hubII • 0 • written 7.1 years ago by svlachavas ▴ 840

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3.5k

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egder dgelist group rnaseq

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by fawazfebin ▴ 60

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3.6k

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DGElist filter edgeR

updated 7.5 years ago by Gordon Smyth 52k • written 7.5 years ago by alakatos ▴ 130

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2.8k

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edger raw reads TMM normalised values DGEList differential gene expression

updated 8.4 years ago by Steve Lianoglou ★ 13k • written 8.4 years ago by benedict.ng ▴ 30

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7.1k

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edger subsetting dgelist

updated 8.4 years ago by Gordon Smyth 52k • written 8.4 years ago by mnaymik ▴ 10

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21k

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edgeR row.names DGEList

9.9 years ago ccheung • 0

14 results • Page 1 of 1

Recent ...

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Votes

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

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