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6.2k

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limma microarray block paired linear model

10.4 years ago vas ▴ 40

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3.7k

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limma covariate block paired samples technical replicates

updated 9.5 years ago by Aaron Lun ★ 28k • written 9.5 years ago by eleonoregravier ▴ 70

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10k

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batch effect combat limma block

updated 9.6 years ago by Ryan C. Thompson ★ 7.9k • written 9.6 years ago by eleonoregravier ▴ 70

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1.9k

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deseq2 block pca

8.9 years ago akp • 0

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2.1k

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limma block design and contrast matrix

9.9 years ago choofd • 0

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3.5k

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batch effect Coeficents non estimable block random effects limma design matrix

updated 7.5 years ago by Aaron Lun ★ 28k • written 7.5 years ago by mheydarpour ▴ 10

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2.4k

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limma microarray block

updated 20 months ago by Gordon Smyth 52k • written 6.3 years ago by tleona3 • 0

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1.4k

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diffbind block regression deseq2 chipseq

updated 4.5 years ago by Rory Stark ★ 5.2k • written 5.6 years ago by melnuesch ▴ 10

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2.4k

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limma sva block

updated 3.2 years ago by stuartthafass • 0 • written 10.5 years ago by kodream ▴ 20

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1.6k

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limma roast mroast block

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

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1.7k

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missmethyl diffvar design matrix limma block

updated 7.0 years ago by lhuang7 ▴ 50 • written 7.9 years ago by Simone ▴ 190

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1.3k

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limma BatchEffect duplicatecorrelation block batch

updated 4.5 years ago by Kevin Blighe ★ 4.0k • written 4.5 years ago by Katherine • 0

12 results • Page 1 of 1

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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by James W. MacDonald 68k

``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…

Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0

Thank you for your explanation, that makes sense. Do you have any suggestions on how to deal with this issue? if it is an issue? especially…

Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by nytwordlehints • 0

I have always had a great fondness for games, so witnessing their transformation into animated versions is truly a delightful experience. […

Comment: FlowSOM is unable to create Output by EvangelinePope • 0

I will remember it, Thank you so much for sharing.

Answer: Limma suqeezeVar by Gordon Smyth 52k

I am not quite clear why you're not using the limma package directly, because it will compute all the variances and the df automatically fo…

Votes

Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

Comment: parameters of filterByExpr

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