Biostar VoomWithQualityWeights

Showing : voomWithQualityWeights • reset

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852

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limma RNA-Seq voom voomWithQualityWeights edgeR

updated 2.4 years ago by Gordon Smyth 46k • written 2.4 years ago by pedrodcb • 0

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520

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limma voom RNA-seq voomWithQualityWeights

updated 3.2 years ago by Matthew Ritchie ▴ 1000 • written 3.2 years ago by Julien Roux ▴ 90

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622

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limma lmfit voom limma design matrix voomwithqualityweights

updated 3.7 years ago by Gordon Smyth 46k • written 3.7 years ago by kediggins ▴ 10

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921

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limma t-statistic voom voomwithqualityweights robust regression

3.7 years ago brynedal ▴ 30

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1.3k

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voomwithqualityweights limma voom duplicatecorrelation

updated 4.1 years ago by Aaron Lun ★ 27k • written 4.1 years ago by BharathAnanth ▴ 70

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1.8k

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limma voomwithqualityweights gene set analysis

updated 4.4 years ago by Aaron Lun ★ 27k • written 4.4 years ago by BharathAnanth ▴ 70

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2.6k

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voom limma-voom voomwithqualityweights rna-seq

updated 4.5 years ago by Matthew Ritchie ▴ 1000 • written 4.5 years ago by anne.biton ▴ 20

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3.0k

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voomWithQualityWeights output

updated 4.7 years ago by Gordon Smyth 46k • written 4.7 years ago by harelarik ▴ 50

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746

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limma edger voom voomWithQualityWeights limma-voom

updated 4.7 years ago by Gordon Smyth 46k • written 4.7 years ago by Guido Hooiveld ★ 3.3k

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Comment: DEXseq error unable to find an inherited method for function NSBS for signature by ta_awwad ▴ 10

Hi there, did you manage to solve this problem? thanks TA

Comment: Error in Create switchAnalyzeRlist by k.vitting.seerup ▴ 120

I just double checked and the fasta files found [here][1] should work. Please also take a look at [this][2] if you want to use Ensembl. …

Answer: Correlation between two different datasets: between results of RNAseq and absenc by Michael Love 37k

Re: LFC, if you are working with this and then downstream analysis, I'd recommend `lfcShrink` if you aren't already using this. It will shr…

Answer: Strange Dispersion plot by Michael Love 37k

This indeed looks strange, I would immediately suspect some weird batch effects. Try all kinds of diagnostic plots like, boxplot, PCA, corr…

Answer: Correlation between CpG methylation and gene expression from DESeq2-> Normalizat by Michael Love 37k

In this case, can you say why you want to normalize for gene length? In our tximport/tximeta pipeline, it would correct for differential ge…

Votes

Answer: Error in Create switchAnalyzeRlist

A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge

DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol

Answer: the difference between getGEO and getGEOSuppFiles

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