Bioconductor Clariom

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838

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Clariom Align MicroarrayData Alignment Microarray

21 months ago agamemnon • 0

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1.5k

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clariom oligo affycoretools pd.hugene.2.0.st

updated 5.7 years ago by James W. MacDonald 67k • written 5.7 years ago by svlachavas ▴ 840

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clariom pd.clariom.d.human

updated 6.1 years ago by James W. MacDonald 67k • written 6.1 years ago by AliStair Rust • 0

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1.2k

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Rna degradation Clariom

updated 6.7 years ago by James W. MacDonald 67k • written 6.7 years ago by kritikamish99 ▴ 10

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2.5k

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affycoretools clariom

updated 7.2 years ago by James W. MacDonald 67k • written 7.2 years ago by willj ▴ 30

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1.2k

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oligo microarray clariom

updated 7.4 years ago by James W. MacDonald 67k • written 7.4 years ago by kmvaldez2 • 0

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899

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clariom genefu

7.4 years ago info • 0

7 results • Page 1 of 1

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Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10

@gordonsmyth I am exploring workflows for differential transcript expression analysis and have been using the nfcore rnasplice pipeline, w…

Answer: What type of counts data to import for performing Isoform analysis in edgeR by Gordon Smyth 52k

I haven't used nf-core but, from browsing through their documentation, they didn't seem to have any pipeline for differential transcript ex…

Comment: What type of counts data to import for performing Isoform analysis in edgeR by Gordon Smyth 52k

The poster needs to run Salmon with `--numGibbsSamples=50`. I suspect that nf-core just won't do that, so Salmon needs to be run directly.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.6k

Probably nf-core did not run with bootstrap/gibbs replicates. Check the code. See salmon docs on how to turn that on.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10

@atpoint Thank you. I did wanted to try using the `quant.sf` files from the `salmon` run by referring edgeR user guide example `4.6 Differe…

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Answer: What type of counts data to import for performing Isoform analysis in edgeR

Transcript-level differential expression using DESeq2

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

Comment: ANOVA like approach of edgeR

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Popular Question to Marek Gierlinski ▴ 30

Scholar to Gordon Smyth 52k

Popular Question to mohammedtoufiq91 ▴ 10

Popular Question to Hans-Ulrich Klein ▴ 330