Bioconductor Ruvseq

Showing : ruvseq • reset

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10k

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deseq2 r ruvseq normalization rnaseq

10.4 years ago nickp60 • 0

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3.1k

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edgeR ruvseq rnaseq isoforms

10.6 years ago • updated 10.5 years ago sergio.espeso-gil • 0

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5.9k

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deseq2 ruvseq sizefacotrs

updated 10.6 years ago by davide risso ▴ 980 • written 10.6 years ago by Assa Yeroslaviz ★ 1.5k

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3.2k

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ruvseq ruv

updated 10.6 years ago by davide risso ▴ 980 • written 10.6 years ago by Pauly Lin ▴ 160

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4.4k

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RUVseq logFC edgeR

10.6 years ago Marie • 0

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3.7k

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RUV ruvseq rnaseq

10.6 years ago sergio.espeso-gil • 0

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1.6k

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RUVSeq

11.3 years ago • updated 11.1 years ago davide risso ▴ 980

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3.4k

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ruvseq RUVs EDA

11.2 years ago asif.zubair • 0

108 results • Page 3 of 3

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Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Votes

C: DESeq2 Following RSEM

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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Commentator to sina.nassiri ▴ 130