Bioconductor Linear models

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deseq2 design matrix multi-confounders linear models rna-seq

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by mohamedrefaat.1.1992 • 0

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1.3k

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methylation ComBat Linear models batch correction AIC

updated 5.1 years ago by Kevin Blighe ★ 4.0k • written 5.2 years ago by lucasmiranda42 • 0

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1.2k

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Limma R Linear Models

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by christiangriffioen • 0

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1000

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ballgown linear models

6.8 years ago Yong Li ▴ 50

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microarray SVA ComBat Linear models Residuals

7.5 years ago DataFanatic ▴ 10

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Comment: Identifying potentially associated gene set to drug response using GSVA by kl2023gege • 0

Thanks for sharing. You gotta check out Sprunki Phase Games on [Sprunki Phase](https://sprunkiphase.net). It's a wild ride of tunes and tw…

Answer: I am having issues with bowtie2_build by James W. MacDonald 67k

Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…

Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k

Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…

Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

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Answer: Unable to install nloptr

Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?

C: How does edgeR cpm function calculate log(CPM) values?

Answer: Selection of correct coefficients or contrasts in DESeq2

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Popular Question to bastien_chassagnol • 0