Showing : contrasts • reset
3
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DESeq2: Contrast for two conditions combined versus one condition (A+B_vs_C)
DESeq2 contrasts
updated 17 months ago by ★ 4.9k • written 17 months ago by ▴ 10
2
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3
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1.0k
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edgeR, 3 x 2 design with a batch effect and contrasts
design edgeR contrasts
updated 18 months ago by 53k • written 18 months ago by • 0
0
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3
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1.5k
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Multiple Testing When Using Multiple Contrasts/Comparisons in DESEQ2
MultipleComparison DESeq2 Genetics contrasts RNASeq
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
1
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2
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883
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Individual DESeq2 runs versus a single DESeq2 run with contrasts produce different results
contrasts DESeq2
2.3 years ago jovel_juan ▴ 30
3
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6
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1.8k
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Question about making Contrasts for comparisons and assignment of values
edgeR contrasts limma design model.matrix
2.8 years ago mohammedtoufiq91 ▴ 10
1
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3
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1.1k
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Limma F-statistic identical for different comparison, why?
limma F-statistic contrasts
updated 2.9 years ago by 53k • written 2.9 years ago by • 0
3
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8
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5.2k
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DESeq2 how to specify contrast to test difference of differences
DifferentialExpression contrasts interaction DESeq2
written 3.4 years ago by ▴ 10
0
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3
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2.1k
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limma voom contrasts
contrasts limma voom
updated 3.6 years ago by 53k • written 3.6 years ago by ▴ 90
0
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1
reply
1.0k
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DESeq2 2x3 design contrast question
DESeq2 contrasts
updated 3.7 years ago by 43k • written 3.7 years ago by • 0
0
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2
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1.4k
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limma voom; fitted lines, factors that aren't of interest, and hypothesis testing
topTable voom contrasts
4.1 years ago James • 0
0
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3
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1.6k
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DESeq2: difficulty with contrasts and main effects
DESeq2 phyloseq contrasts
updated 4.1 years ago by ★ 4.0k • written 4.1 years ago by • 0
2
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8
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2.9k
views
DESeq2 numbers of DEGs not consistent with PCA plot
DifferentialExpression DESeq2 contrasts
4.4 years ago • updated 4.3 years ago Jane ▴ 10
3
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8
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1.8k
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Same contrasts returning different edgeR results
edger limma contrasts DGE
updated 5.8 years ago by 68k • written 5.8 years ago by • 0
0
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1
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1.4k
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DESeq2 - how to run contrasts leaving out one factor, not just using the reference?
deseq2 contrasts reference level
updated 5.8 years ago by 43k • written 5.8 years ago by • 0
0
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0
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971
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EdgeR: Transforming coefficients before testing for differential expression
edger contrasts model.matrix circadian
5.8 years ago ingerslev • 0
0
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1
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1.5k
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DESeq2 very complex design - how extract contrasts of interest?
DESeq2 RNA-Seq Multifactorial Design GLM Contrasts
updated 5.8 years ago by 43k • written 5.8 years ago by • 0
2
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3
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1.8k
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DESeq2 2x2 factorial design: find genes unique to factor A?
deseq2 deseq differential expression contrasts
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 180
0
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4
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1.4k
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Setting up contrasts with 'limma', patient data, small number of repeats
limma nanostring contrasts
updated 6.0 years ago by 53k • written 6.0 years ago by • 0
0
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1
reply
972
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DESeq2 compairson of 3 samples from 1 type
deseq2 multiple factor design contrasts experimental design
updated 6.3 years ago by 43k • written 6.3 years ago by • 0
3
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5
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1.9k
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Experimental design RNAseq differential expression
edger limma design contrasts batch
updated 6.5 years ago by ★ 29k • written 6.5 years ago by ▴ 40
2
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6
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1.6k
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Making sense out of makeContrasts and using coefficents for contrasts
edger contrasts
updated 6.6 years ago by 53k • written 6.6 years ago by • 0
21 results • Page 1 of 1
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Comment: Sharing a collection of datasets in ExperimentHub by Peter Hickey ▴ 760
The [**scRNAseq**](https://bioconductor.org/packages/scRNAseq/) package ([source on GitHub](https://github.com/LTLA/scRNAseq)) might serve …
Answer: EuroBioC2023 abstract submission is open! by efuite222 • 0
Abstract submissions are now open for the #EuroBioC2023 conference in Ghent, Belgium, from September 20-22; submit by April 14 for opportu…
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi by ReinholdGaylord99 • 0
Thank you so much! https://www.nature.com/articles/s41467-021-25960-2/ [geometry dash lite](https://geometrydashlite.online)
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
I'm not sure that I understand. You have a dataset that, even after pseudo-bulking, still has 6000 samples? That is surprising. Retaining …
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by abaed • 0
Hello again @gordonsmyth, I've now applied the analysis using a more detailed annotation of cell types/clusters, which includes about 100 …
Votes
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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