Bioconductor Mds

Showing : mds • reset

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3.1k

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edger DEG mds plot

7.3 years ago baus87 • 0

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2.9k

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MDS edger

updated 9.0 years ago by Gordon Smyth 52k • written 10.0 years ago by tobler • 0

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4.5k

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edgeR plotmds differential gene expression MDS mdsplot

updated 5.9 years ago by Gordon Smyth 52k • written 5.9 years ago by ilovesuperheroes1993 • 0

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1.2k

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MDS RNA-Seq

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

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1.6k

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plotMDS PCA RNASeq MDS

updated 2.7 years ago by Gordon Smyth 52k • written 2.7 years ago by Raito92 ▴ 60

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1.8k

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differential gene expression cmdscale mds

8.6 years ago Adam • 0

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1.7k

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limma methylation R covariate MDS

updated 7.6 years ago by Aaron Lun ★ 28k • written 7.6 years ago by RC • 0

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1.4k

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champ MDS

9.0 years ago Eric Smith • 0

8 results • Page 1 of 1

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Comment: Merge Replicates vs Mixed Model by abadgerw • 0

Thanks, @gabrielhoffman My understanding is that both options would still be mixed models: Even with technical replicates (3 wells per d…

Comment: Differential Expression Genes as Independent Variables by Dario Strbenac ★ 1.5k

Also, the reason why gene abundance is the dependent variable and is iterated over is that there are far more genes than there are samples …

Comment: rrvgo::calculateSimMatrix() error by Phila • 0

Thanks for sharing the solution. It helps me. [nced cloud][1] [1]: https://my-ncedcloud-login.us/

Comment: Merge Replicates vs Mixed Model by gabriel.hoffman ▴ 170

For your proteomics data, your normalization is correct. I had assumed it was RNA-seq because that is what I think about most. When using…

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

@gordonsmyth I will re-run Salmon with the --numGibbsSamples=50 option. Thank you.

Votes

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

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

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