Biostar MDS

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184

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plotMDS PCA RNASeq MDS

updated 3 months ago by Gordon Smyth 45k • written 3 months ago by Raito92 ▴ 60

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1.5k

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edgeR plotmds differential gene expression MDS mdsplot

updated 3.5 years ago by Gordon Smyth 45k • written 3.5 years ago by ilovesuperheroes1993 • 0

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1.7k

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edger DEG mds plot

4.9 years ago baus87 • 0

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841

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limma methylation R covariate MDS

updated 5.2 years ago by Aaron Lun ★ 27k • written 5.2 years ago by RC • 0

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1.1k

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differential gene expression cmdscale mds

6.2 years ago Adam • 0

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845

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champ MDS

6.5 years ago Eric Smith • 0

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1.8k

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MDS edger

updated 6.6 years ago by Gordon Smyth 45k • written 7.6 years ago by tobler • 0

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Answer: Cannot Install WGCNA by shepherl 3.1k

If you first install preprocessCore and then try again? `BiocManager::install("preprocessCore")` `BiocManager::install("WGCNA")` …

Answer: Why Negative value from GSVA by Robert Castelo ★ 2.9k

hi, i guess when you say that you are using "RNA-Seq Row Count data" you mean "RNA-Seq raw count data" in the sense that the count data is …

Comment: Low Differentially Bound Sites found with DiffBind by gannoncottone • 0

I will look into plots of the data more thoroughly and see if any of the trends fit the reasons for low differential binding sites! Thank y…

Answer: Low Differentially Bound Sites found with DiffBind by Rory Stark ★ 4.4k

The script looks fine for a basic analysis. There are a number of *possible* reasons you may not be getting any significantly differenti…

Answer: Diffbind analysis of ATAC-seq data by Rory Stark ★ 4.4k

This is showing that all of the open chromatin changes are in the same "direction": sites that are open in the `aa` condition only. There a…

Votes

Comment: DiffBind GreyListChIP error: Error: BiocParallel errors

Answer: Error message: Could not find function "DESeqDataSetFromMatrix"

XVector installation fails because zlib.h is not found

A: what is fitProbeLevelModel()? doing

Answer: How fix lines of dendrogram that overlap in the column portion of a heatmap?

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