Bioconductor Voomwithqualityweights

Showing : voomwithqualityweights • reset

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4.9k

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voomWithQualityWeights output

updated 7.5 years ago by Gordon Smyth 52k • written 7.5 years ago by harelarik ▴ 60

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1.9k

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limma t-statistic voom voomwithqualityweights robust regression

6.5 years ago brynedal ▴ 40

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4.0k

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limma RNA-Seq voom voomWithQualityWeights edgeR

updated 5.2 years ago by Gordon Smyth 52k • written 5.2 years ago by pedrodcb ▴ 10

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2.8k

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voomwithqualityweights limma voom duplicatecorrelation

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by BharathAnanth ▴ 80

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4.0k

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limma voomwithqualityweights gene set analysis

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by BharathAnanth ▴ 80

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1.6k

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limma edger voom voomWithQualityWeights limma-voom

updated 7.5 years ago by Gordon Smyth 52k • written 7.5 years ago by Guido Hooiveld ★ 4.1k

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1.4k

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limma lmfit voom limma design matrix voomwithqualityweights

updated 6.4 years ago by Gordon Smyth 52k • written 6.4 years ago by kediggins ▴ 10

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1.3k

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limma voom RNA-seq voomWithQualityWeights

updated 6.0 years ago by Matthew Ritchie ▴ 1000 • written 6.0 years ago by Julien Roux ▴ 90

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4.9k

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voom limma-voom voomwithqualityweights rna-seq

updated 7.3 years ago by Matthew Ritchie ▴ 1000 • written 7.3 years ago by anne.biton ▴ 20

9 results • Page 1 of 1

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Answer: Heatmap of rnaseq data with z-score scale by James W. MacDonald 68k

Without including the row names for the heatmap, it's impossible to know if the directionality is switched or not. Do note that the orderin…

Comment: Heatmap of rnaseq data with z-score scale by giovanna • 0

![Figure1][1]![Figure2][2] [1]: /media/images/d62918c5-2886-44ae-930d-91d292c3 [2]: /media/images/421df232-8a9c-4016-bc4a-431ca57a

Comment: parameters of filterByExpr by caroline.zanchi ▴ 10

Ah yes sorry :) But then I still do not understand why is it that on the plot I attached, the gene definitely has non-0 counts in less than…

Answer: Typo in the help of lmFit() by Gordon Smyth 52k

Thanks for the heads-up. > The _Details_ in the documentation of lmFit() still says that the default correlation is 0.75 Yes, you're righ…

Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by caroline.zanchi ▴ 10

Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…

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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm

Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

Awards • All

Scholar to James W. MacDonald 68k