Bioconductor VariancePartition

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variancePartition

10 minutes ago Le • 0

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variancePartition BiocParallel

4 months ago hayleyw • 0

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791

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variancePartition RNASeqData limma BulkRNAseq RNASeq

updated 4 months ago by Gordon Smyth 50k • written 6 months ago by Gimena • 0

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variancePartition mixedmodel dream

7 months ago hayleyw • 0

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DESeq2 variancePartition

12 months ago • updated 11 months ago Weiqian ▴ 10

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664

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RNAseq variancePartition edgeR dream

13 months ago DH • 0

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variancePa variancePartition limma-voom dream

updated 13 months ago by Gordon Smyth 50k • written 13 months ago by Le • 0

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expression variancePartition edgeR

20 months ago Jonathan • 0

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edgeR limma variancePartition

updated 2.7 years ago by Gordon Smyth 50k • written 2.7 years ago by jackgisby • 0

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1.2k

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limma variancePartition

updated 2.8 years ago by Gordon Smyth 50k • written 2.8 years ago by jarod ▴ 30

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772

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variancePartition limma

3.0 years ago Junghoon ▴ 10

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1.1k

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variancePartition limma BiocParallel

3.0 years ago Junghoon ▴ 10

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BiocParallel limma variancePartition

3.0 years ago • updated 2.8 years ago Junghoon ▴ 10

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dream variancePartition limma differential expression repeated measures

updated 4.5 years ago by Gordon Smyth 50k • written 4.5 years ago by hermidalc ▴ 20

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variancepartition lme4 mixedmodel

updated 4.5 years ago by gabriel.hoffman ▴ 100 • written 4.6 years ago by c.taylor • 0

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limma voom variancePartition dream

updated 4.5 years ago by gabriel.hoffman ▴ 100 • written 4.8 years ago by Ben ▴ 50

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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 psychology doctor who treat Alzheimer patients and they don'…

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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