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Normalized count in edger
edger written 14 hours ago by mzillur • 0 • updated 43 minutes ago by theodore.georgomanolis • 0
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1
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64
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Majority upregulated genes in edgeR
edger differential expression genes fold change written 1 day ago by ilovesuperheroes1993 • 0 • updated 6 hours ago by Aaron Lun • 24k
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1
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59
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adjusting for confounding effects in edgeR
edger confounding written 5 days ago by Victoria • 0 • updated 5 days ago by Aaron Lun • 24k
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102
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Combining counts from non-replicate samples in RNA-Seq analysis for a synergistic system
normalization edger counts rna-seq written 5 days ago by Tima Karginov • 0 • updated 5 days ago by Aaron Lun • 24k
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Confounded design, batch effect correction (edgeR)
rnaseq edger differential gene expression batch effect written 9 months ago by Laura • 20 • updated 5 days ago by Victoria • 0
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1
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1
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bug in "dispersion" argument in edgeR - rpkmByGroup
edger rpkm written 6 days ago by dario.beraldi • 0 • updated 6 days ago by rosehahn8583 • 0
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1
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Re-numbering blocking IDs on paired samples with duplicateCorrelation or design covariate
limma edger duplicatecorrelation batch effect written 7 days ago by altintas.ali • 0 • updated 7 days ago by Aaron Lun • 24k
6
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1
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150
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How to find out the genes that changes in expression by using gene level expression data matrix?
microarray affy limma edger written 11 days ago by Jurat Shahidin • 60
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How to determine the cause of no difference between treatments in rnaseq?
rnaseq edger dge written 12 days ago by jdmontenegroc • 0 • updated 11 days ago by Gordon Smyth ♦ 37k
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RNA-Seq and edgeR: remarkable differences between cpms and fitted values
normalization edger differential expression rna-seq fitted values written 14 days ago by David Rengel • 70 • updated 13 days ago by Gordon Smyth ♦ 37k
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Incorporating factors of unwanted variation from RUVr into EdgeR cell means model for DE
rnaseq edger ruvseq glm ruvr written 15 days ago by garbuzov • 0
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Error: row names supplied are of the wrong length in RUVSeq
edger ruvseq software error written 10 weeks ago by ce.jim.san • 0 • updated 20 days ago by davide risso • 830
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phyloseq to edgeR
edger written 20 days ago by nabiyogesh • 0 • updated 20 days ago by Gordon Smyth ♦ 37k
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Test genes expressed ( not just expressed higher ) in one or two group
limma edger written 21 days ago by heyao • 30 • updated 21 days ago by Gordon Smyth ♦ 37k
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1
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151
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logCPM to CPM conversion after removeBatchEffect()
limma edger cpm removebatcheffect logcpm written 27 days ago by altintas.ali • 0
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1
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164
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Differential gene expression using edgeR and using a generalised linear model (GLM)
edger glm written 5 weeks ago by alihakimzadeh73 • 0 • updated 5 weeks ago by Aaron Lun • 24k
2
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1
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Why the result of pairwise comparison and Anova comparison of the same contrast is different ?
edger written 5 weeks ago by star • 0 • updated 5 weeks ago by Gordon Smyth ♦ 37k
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1
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64
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Meaning of edgeR decideTestsDGE values
edger written 5 weeks ago by am3 • 0 • updated 5 weeks ago by Gordon Smyth ♦ 37k
1
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1
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75
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1
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Call DE genes on Unbalanced design with controls
edger experimental design written 5 weeks ago by timedreamer • 10
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Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
limma edger written 6 weeks ago by anna.cot.anna.cot • 0 • updated 6 weeks ago by Gordon Smyth ♦ 37k
5
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198
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Correct use of tximport in combination with edgeR cpm()
edger tximport written 6 weeks ago by ATpoint • 10 • updated 6 weeks ago by James W. MacDonald ♦ 50k
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1
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92
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edgeR and batch effect correction for differential analysis
rnaseq batcheffect limma edger R written 6 weeks ago by madhu93 • 0 • updated 6 weeks ago by James W. MacDonald ♦ 50k
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edgeR removing batch effect before using expression data for clustering
batcheffect clustering edger R removebatcheffect written 6 weeks ago by Biologist • 70 • updated 6 weeks ago by James W. MacDonald ♦ 50k
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1
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Regarding error in Trinity edgeR calculation
edger written 7 weeks ago by sakshi.rajput55 • 0 • updated 6 weeks ago by Gordon Smyth ♦ 37k
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1
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Complex Design matrix for DE analysis
limma edger deseq2 written 7 weeks ago by sutturka • 0 • updated 7 weeks ago by Michael Love ♦ 24k
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