Bioconductor PlotMDS

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plotMDS limma

18 months ago • updated 17 months ago Cen • 0

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plotMDS limma

updated 19 months ago by Gordon Smyth 52k • written 19 months ago by liujy4 • 0

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plotMDS PCA RNASeq MDS

updated 2.8 years ago by Gordon Smyth 52k • written 2.8 years ago by Raito92 ▴ 60

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limma plotMDS

3.5 years ago jamie.gearing ▴ 60

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edgeR plotmds differential gene expression MDS mdsplot

updated 6.0 years ago by Gordon Smyth 52k • written 6.0 years ago by ilovesuperheroes1993 • 0

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890

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plotMDS Cell lines limma

updated 6.4 years ago by Gordon Smyth 52k • written 6.4 years ago by Alexander Azarian ▴ 30

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tree bootstrap dgelist plotmds

6.9 years ago Larry K. • 0

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limma edger plotmds tmm masigpro

7.1 years ago dacaba.92 ▴ 10

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edger plotmds

7.3 years ago fawazfebin ▴ 60

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edger plotmds

updated 7.3 years ago by Aaron Lun ★ 28k • written 7.3 years ago by mictadlo ▴ 10

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affymetrix microarrays sva combat sva batch effect plotMDS

updated 8.4 years ago by Jeff Leek ▴ 650 • written 8.4 years ago by svlachavas ▴ 840

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rgl plot3d plotmds

8.8 years ago Adam • 0

12 results • Page 1 of 1

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Answer: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k

The short answer is yes, you can use even a single sample to estimate the batch effect (and therefore control for it in otherwise confounde…

Comment: How to sort negative log2FC or FC in RNAseq for GSEA? by alserg ▴ 280

`NES > 0` means that your gene set has more genes with positive logFC/stat. In your case these genes should be up in Subset1. However, if y…

Answer: affymetrix by James W. MacDonald 67k

When posting it helps to think about the people you are asking for help. Your post is hidden within the dummy text that comes up when you i…

Answer: Problems with GSEA by Guido Hooiveld ★ 4.1k

The error `Duplicate values in names(stats) not allowed` (from `fgsea` that is used under the hood) shows that the input is not unique; in …

Answer: Error compiling Rbowtie2 in R-4.4 (Bioconductor 3.20 and probably 3.19) by ja.garcia • 0

It has been fixed by the Rbowtie2 maintainers in version 2.12.2. Thank you for the quick fix!

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Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

Answer: EdgeR Biological CVs

Answer: Error in download.file for TCGAutils::symbolsToRanges

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