Bioconductor SystemPipeR

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978

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systemPipeRdata systempipeR

2.1 years ago appropiate • 0

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503

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systemPipeRdata systemPipeR

2.2 years ago appropiate • 0

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763

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systemPipeR

updated 2.4 years ago by dcassol ▴ 100 • written 2.4 years ago by Bioinformatics ▴ 30

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3.0k

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systemPipeR Bioconductor DiffBind BiocGenerics

updated 3.3 years ago by Martin Morgan 25k • written 3.3 years ago by tina • 0

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683

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predORF systemPipeR ORF prediction

5.1 years ago Mr.RB ▴ 20

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3.7k

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systempiper

5.4 years ago Deleted ▴ 70

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1.2k

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runCommandline systemPipeR bash

5.6 years ago rj.innet • 0

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1.2k

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systemPipeR rnaseq

5.7 years ago rj.innet • 0

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673

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systempiper

5.7 years ago kimberly.dickson • 0

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1.7k

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systempiper edger rna-seq

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by clarisbaby • 0

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1.1k

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systempiper R batchjobs

updated 6.6 years ago by Thomas Girke ★ 1.7k • written 6.6 years ago by tarun2 • 0

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1.2k

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R edger systemPipeR

7.2 years ago xuertowong • 0

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2.1k

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R rnaseq tophat summarizeoverlaps systempiper

updated 7.5 years ago by Thomas Girke ★ 1.7k • written 7.5 years ago by abass.conteh • 0

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systempiper run_edgeR

updated 7.6 years ago by Thomas Girke ★ 1.7k • written 7.6 years ago by alexandr.gopanenko ▴ 50

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3.7k

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deseq2 systempiper Tutorial

7.9 years ago musa ▴ 10

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1.4k

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systempiper go term

7.9 years ago A Gossner ▴ 50

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1.6k

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systempiper seeFastqPlot software error ggplot2 geom_histogram

updated 8.3 years ago by Thomas Girke ★ 1.7k • written 8.3 years ago by setarosd • 0

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deseq2 systemPipeR

9.5 years ago Ugo Borello ▴ 340

18 results • Page 1 of 1

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Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k

This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…

Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0

Thank you Tim, this is a great help in getting me started!

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Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

A: Print Differentially Expressed Exons From Dexseq Results

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