Bioconductor Model matrix

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limma model matrix linear regression

5.6 years ago agm • 0

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deseq2 model matrix experimental design multiple factor design

updated 7.0 years ago by Michael Love 43k • written 7.0 years ago by amye107 • 0

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deseq2 linear combination model matrix

updated 7.3 years ago by Michael Love 43k • written 7.3 years ago by sally_b86 • 0

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rnaseq edger statistics model matrix

updated 7.3 years ago by Steve Lianoglou ★ 13k • written 7.3 years ago by David R ▴ 90

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deseq2 design and contrast matrix model matrix

7.9 years ago mrigaya.mehra ▴ 10

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deseq2 differential gene expression model matrix

updated 8.0 years ago by Michael Love 43k • written 8.0 years ago by gregory.l.stone ▴ 10

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edger deseq2 model matrix differential expression

8.4 years ago ta65 • 0

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3.4k

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ballgown linear model model matrix custom model

8.9 years ago • updated 8.8 years ago sbcn ▴ 80

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4.3k

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limma model matrix limma design matrix complex-design

updated 9.6 years ago by Aaron Lun ★ 28k • written 9.6 years ago by Guido Hooiveld ★ 4.1k

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limma limma design matrix model matrix

updated 9.7 years ago by Aaron Lun ★ 28k • written 9.7 years ago by andrew.j.skelton73 ▴ 370

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4.3k

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edger design matrix model matrix

updated 9.8 years ago by Aaron Lun ★ 28k • written 9.8 years ago by silvia.paolucci81 • 0

11 results • Page 1 of 1

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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!

Votes

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