Bioconductor Confounding factors

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differential gene expression nanostring confounding factors

updated 5.9 years ago by James W. MacDonald 67k • written 5.9 years ago by Guillaume Robert • 0

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limma design matrix paired samples confounding factors

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by yuabrahamliu • 0

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Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0

Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…

Comment: Merge Replicates vs Mixed Model by abadgerw • 0

@gabrielhoffman any insight?

Comment: makeContrastsDream for Interaction by abadgerw • 0

@gabrielhoffman any insight?

Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta by Michael Love 42k

That is the rows that did converge.

Answer: Is my time course analysis with DESeq2 valid? by Michael Love 42k

For choosing the correct statistical design, I recommend working with a local statistician or someone familiar with linear models in R. I h…

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Answer: [How to construct a model.matrix ]

Answer: Handling biological replicates in DESeq2

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