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Help with edgeR
edger written 1 day ago by Neu.S • 10 • updated 1 day ago by Gordon Smyth ♦ 37k
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[EdgeR] Outcomes Analysis conditioning on Paired PreTx-PostTx gene expression changes
edger design matrix timepoint pairwise comparison written 1 day ago by ctian1989 • 0 • updated 1 day ago by Gordon Smyth ♦ 37k
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EdgeR between/within comparisons (3.5) with nested non-balanced data set
edger glm nested glmqlfit written 8 days ago by jcalis • 0 • updated 7 days ago by Aaron Lun • 23k
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Error: row names supplied are of the wrong length in RUVSeq
edger ruvseq software error written 7 days ago by ce.jim.san • 0 • updated 7 days ago by Gordon Smyth ♦ 37k
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Voom shows error message:
edger limma voom written 13 days ago by mahmudornob • 0 • updated 13 days ago by Gordon Smyth ♦ 37k
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EdgeR glmTreat error
edger error written 14 days ago by peruzzaluca • 0 • updated 14 days ago by James W. MacDonald ♦ 49k
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create DGElist Object
edger dgelist written 20 days ago by naser.sadri • 0 • updated 19 days ago by Gordon Smyth ♦ 37k
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Paired DE analysis in edgeR with trios of samples while blocking for various confounders
rnaseq edger design matrix paired analysis written 22 days ago by svlachavas • 650
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Appropriate experimental design for differential expresion
normalization cancer edger written 4 weeks ago by jivarajivaraj • 10 • updated 4 weeks ago by swbarnes2 • 170
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RNA-seq Statstical Models and Transcriptional Amplification
edger deseq2 transcriptional amplification written 4 weeks ago by Dario Strbenac • 1.4k • updated 4 weeks ago by Aaron Lun • 23k
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153
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Experimental design RNAseq differential expression
limma edger design batch contrasts written 4 weeks ago by Pietro • 20 • updated 4 weeks ago by Aaron Lun • 23k
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73
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ENSEBL gene_ID in edgeR analysis
edger refseq enembl written 5 weeks ago by mzillur • 0 • updated 5 weeks ago by Gordon Smyth ♦ 37k
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How to analyze RNAseq data with multiple treatment groups and each subject has pre and post-treatment measures using deseq2/edger/limma?
limma edger deseq2 tutorial written 5 weeks ago by wwu222 • 0 • updated 5 weeks ago by Michael Love ♦ 23k
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subset samples for RNAseq differential analysis
limma edger rnasq written 5 weeks ago by sckinta • 0 • updated 5 weeks ago by Aaron Lun • 23k
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edgeR design matrix not of full rank
edger written 6 weeks ago by adhikb • 0 • updated 6 weeks ago by Aaron Lun • 23k
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115
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using limma for circular RNA analyses
limma edger R written 6 weeks ago by tan_pei_fang • 0 • updated 6 weeks ago by Aaron Lun • 23k
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Dependence of FDR and P-values on sample size
edger fdr p-value differential analysis benjamini-hochberg written 6 weeks ago by ilovesuperheroes1993 • 0 • updated 6 weeks ago by Aaron Lun • 23k
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Paired analysis (tumor vs normal) at three different conditions with EdgeR
edger design de matrix written 7 weeks ago by takumima • 10 • updated 7 weeks ago by Aaron Lun • 23k
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I am trying to recreate results from an Alzheimer's paper but I can't figure out my linear regression model
microarray limma edger differential gene expression linear regression written 7 weeks ago by ravelarvargas • 0
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155
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edgeR: request for additional guidelines for responsible limiting of genes that can be analyzed statistically
edger written 7 weeks ago by lepstein • 0 • updated 7 weeks ago by Gordon Smyth ♦ 37k
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118
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Batch effect and edgeR analysis
edger rna-seq batch effect written 7 weeks ago by Sara • 0 • updated 7 weeks ago by Gordon Smyth ♦ 37k
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Biological coefficient of variation(BCV) calculation in edgeR
edger bcv written 8 weeks ago by n.naharfancy • 0 • updated 8 weeks ago by Aaron Lun • 23k
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I am having trouble recreating the linear regression results published in an Alzheimer's paper
microarray limma edger differential gene expression linear regression written 8 weeks ago by ravelarvargas • 0
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127
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Time-series analysis with DESeq2
edger deseq2 design matrix time-series written 9 weeks ago by Assa Yeroslaviz • 1.4k • updated 9 weeks ago by Michael Love ♦ 23k
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Making sense out of makeContrasts and using coefficents for contrasts
edger contrasts written 9 weeks ago by Maiv • 0 • updated 9 weeks ago by Gordon Smyth ♦ 37k
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