Bioconductor Deseq2

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 20 minutes ago by SamGG ▴ 350 • written 5 hours ago by Alexandre • 0

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DESeq2 PCAtools

updated 3 hours ago by JKim • 0 • written 14 hours ago by Aaliya • 0

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DESeq2 RNAseq

updated 20 hours ago by Michael Love 41k • written 1 day ago by kcarey • 0

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109

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DESeq2

updated 4 hours ago by James W. MacDonald 65k • written 1 day ago by winwater0928 • 0

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228

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DESeq2 RSTUDIO PCAtools

updated 12 hours ago by swbarnes2 ★ 1.3k • written 2 days ago by Aaliya • 0

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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350

Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre

Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k

Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…

Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0

Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…

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C: null model and DEXSeqDataSet object in DEXSEQ

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Scholar to James W. MacDonald 65k

Supporter to JKim • 0