Bioconductor Nested design

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deseq2 nested design

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by katarina.truve • 0

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deseq2 nested design

updated 5.7 years ago by Michael Love 41k • written 5.7 years ago by xie186 • 0

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nested design post hoc edgeR

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by ashley.lu • 0

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edgeR nested design differential expression

updated 6.0 years ago by Gordon Smyth 50k • written 6.0 years ago by chiayi • 0

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1.3k

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edgeR model.matrix nested design reference group

updated 6.0 years ago by Aaron Lun ★ 28k • written 6.0 years ago by ri.lars ▴ 40

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958

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deseq2 multiple factor design nested design

6.2 years ago michael.steffen ▴ 20

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deseq2 multiple factor design nested design interaction term

updated 6.9 years ago by Michael Love 41k • written 6.9 years ago by zahra.aboukhalil • 0

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deseq2 interaction model nested design

7.1 years ago glocke01 ▴ 10

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1.4k

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edgeR removeBatchEffect nested design

updated 7.5 years ago by Aaron Lun ★ 28k • written 7.5 years ago by Jenny Drnevich ★ 2.0k

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multifactor nested design deseq2

7.6 years ago swaegers.janne • 0

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1.5k

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edger multifactor nested design

7.7 years ago • updated 7.6 years ago swaegers.janne • 0

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limma edger nested design

updated 7.6 years ago by Ryan C. Thompson ★ 7.9k • written 7.6 years ago by xluong • 0

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edger differential gene expression without replicate nested design help

updated 7.8 years ago by Aaron Lun ★ 28k • written 7.8 years ago by knipehf • 0

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edger nested design rnaseq

updated 8.9 years ago by Ryan C. Thompson ★ 7.9k • written 8.9 years ago by mrwarner09 • 0

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2.3k

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deseq2 Nested design random variable

updated 8.9 years ago by Michael Love 41k • written 8.9 years ago by Silva • 0

15 results • Page 1 of 1

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Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k

As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…

Comment: Batch correction and repeated measures by Gordon Smyth 50k

In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…

Comment: Methylation Analysis experiment design using Limma by Gordon Smyth 50k

I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…

Comment: Light difference when using coef vs omit a group when compare 3 groups. by Chris • 0

Hi Gordon, thank you so much for further guidance! I discussed this issue with doctor know about Alzheimer and they don't expect significan…

Comment: Single-Cell Data Simulation from Bulk RNA-seq by wichaidi • 0

Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.

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Answer: How many of my genes from my gene list are in each KEGG pathway?

Comment: Light difference when using coef vs omit a group when compare 3 groups.

DESeq2 variance transformation error and plot dispersion Estimate

A: DESeq2 variance transformation error and plot dispersion Estimate

ensembl to hgnc symbols creates duplicates

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