Bioconductor Plotma

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plotMA ggplot2 plotPCA DESeq2

updated 7 months ago by Michael Love 42k • written 7 months ago by sara.jacobson • 0

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632

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matrixsubset DESeq2 plotMA

updated 3.1 years ago by Michael Love 42k • written 3.1 years ago by l.troxler ▴ 10

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901

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deseq2 plotMA rnaseq community analysis asymmetry

updated 4.2 years ago by Michael Love 42k • written 4.2 years ago by chaco001 • 0

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973

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agilent single channel plotMA background correction

updated 6.0 years ago by Gordon Smyth 50k • written 6.0 years ago by CantExitVIM ▴ 10

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1.1k

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deseq2 plotMA rnaseq logfoldchange

updated 6.2 years ago by Michael Love 42k • written 6.2 years ago by ap_vc21 • 0

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deseq2 plotma

6.7 years ago Yvan Wenger ▴ 50

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rstudio r plotMA

6.9 years ago g.k • 0

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4.8k

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deseq2 rnaseq plotMA deseq rna-seq

updated 8.1 years ago by Michael Love 42k • written 8.1 years ago by sjs0282 • 0

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3.7k

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limma plotMA

updated 8.7 years ago by Gordon Smyth 50k • written 8.7 years ago by Lisa Cohen ▴ 50

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2.4k

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normalization deseq2 plotMA meanSDplot

8.8 years ago aravenscraft • 0

10 results • Page 1 of 1

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Answer: Subsetting RNAseq data | voomaByGroup() by Gordon Smyth 50k

Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…

Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k

Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.

Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k

Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…

Comment: Ensembl plants at annotationHub? by Daniele • 0

Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!

Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k

If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?

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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa

Rsubread counting peaks ATACseq

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