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2
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71
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1
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Time-series analysis with DESeq2
edger deseq2 design matrix time-series written 3 days ago by Assa Yeroslaviz • 1.4k • updated 3 days ago by Michael Love ♦ 22k
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62
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1
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Making sense out of makeContrasts and using coefficents for contrasts
edger contrasts written 4 days ago by Maiv • 0 • updated 3 days ago by Gordon Smyth ♦ 36k
4
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1
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96
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1
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RNA-seq batch correction using technical replicates profiled across batches
limma edger sva deseq2 ruvseq written 5 days ago by enricoferrero • 570 • updated 4 days ago by Gordon Smyth ♦ 36k
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3
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70
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3
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edgeR /DESeq2 normalization for differential expression in RNA-seq blood samples
rnaseq normalization edger deseq2 hemoglobin written 7 days ago by aec • 40 • updated 7 days ago by Ryan C. Thompson ♦ 7.2k
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differentail expression analysis with interaction terms
edger deseq2 design matrix interaction written 7 days ago by Assa Yeroslaviz • 1.4k • updated 7 days ago by James W. MacDonald ♦ 49k
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62
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2
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Conduct likelihood ratio tests for a variable that isn't explicitly defined by matrix.model
edger written 9 days ago by blumroy • 0 • updated 8 days ago by Gordon Smyth ♦ 36k
1
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1
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65
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1
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How do you obtain the R - squared value from the NB line produced in plotMeanVar ?
rnaseq edger R written 9 days ago by nickwongga • 0 • updated 8 days ago by Gordon Smyth ♦ 36k
4
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2
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166
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2
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Use of pseudoalignment estimated counts as input to edgeR and Limma-Voom
edger tpm rnaseq-quantification written 15 days ago by raf4 • 20 • updated 14 days ago by Gordon Smyth ♦ 36k
1
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1
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124
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1
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My linear regression model is giving me too many differentially expressed genes
limma edger differential gene expression rna-seq linear regression written 21 days ago by ravelarvargas • 0 • updated 21 days ago by Aaron Lun • 22k
2
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1
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97
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1
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edgeR or wilcoxon rank test? Which is right?
cancer edger R rna-seq wilcox written 21 days ago by jivarajivaraj • 10
2
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2
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130
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2
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Differential expression analysis error
edger written 22 days ago by Mary • 0 • updated 21 days ago by Gordon Smyth ♦ 36k
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2
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135
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2
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how can I calculate FDR with no replicate
microarray edger written 23 days ago by Bioinformatics • 30 • updated 23 days ago by Gordon Smyth ♦ 36k
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64
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1
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EdgeR -- differentially expressed genes across a continuous variable
regression edger continuous written 24 days ago by emb13 • 0 • updated 24 days ago by James W. MacDonald ♦ 49k
3
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1
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148
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1
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Different results with DESeq2 and EdgeR
edger deseq2 written 4 weeks ago by jivarajivaraj • 10
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79
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1
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Is it allowed to fit two models to make between and within subjects comparisons separately?
rnaseq limma edger deseq2 random effects written 4 weeks ago by tcalvo • 30
2
votes
1
answer
101
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1
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Different DEG results using Ballgown and edgeR
rnaseq edger batch effect ballgown adjustvars written 4 weeks ago by IRAIA.MAIALEN • 0 • updated 4 weeks ago by Gordon Smyth ♦ 36k
2
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1
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65
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1
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edgeR DEG how many treatments should be fitted to GLM
edger glm written 4 weeks ago by zhang.jianhai • 0 • updated 4 weeks ago by Gordon Smyth ♦ 36k
2
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1
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73
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1
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edgeR DEG sample size
edger minimum samples written 4 weeks ago by jzhan067 • 0 • updated 4 weeks ago by Gordon Smyth ♦ 36k
2
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3
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154
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3
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Differential Expression Analysis in edgeR using Anova
edger anova dispersion gene expression written 5 weeks ago by ilovesuperheroes1993 • 0 • updated 5 weeks ago by bioparticles.melly • 0
1
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1
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142
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1
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edgeR for time series
edger written 5 weeks ago by sharvari gujja • 20 • updated 5 weeks ago by Gordon Smyth ♦ 36k
5
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1
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165
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1
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Paired analysis setup using edgeR - follow up question
edger written 6 weeks ago by candida.vaz • 30
1
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1
answer
149
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1
answer
Setting up the design for paired analysis
limma edger paired design written 11 weeks ago by candida.vaz • 30
1
vote
1
answer
68
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1
answer
Aclaration of batch effect adjust in DE analysis
rnaseq edger batch effect written 6 weeks ago by IRAIA.MAIALEN • 0 • updated 6 weeks ago by James W. MacDonald ♦ 49k
3
votes
1
answer
125
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1
answer
Average read counts and batch-effect correction in edgeR
edger ngs rna-seq batch-effect read counts written 6 weeks ago by Roman • 10 • updated 6 weeks ago by Aaron Lun • 22k
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7 follow
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differential expression analysis of htseq data with edgeR/voom
limma edger voom htseq rnaseq123 written 20 months ago by wd • 20 • updated 6 weeks ago by Gordon Smyth ♦ 36k
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