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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 15 days ago by svlachavas • 650
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Time-series analysis with DESeq2
edger deseq2 design matrix time-series written 8 weeks ago by Assa Yeroslaviz • 1.4k • updated 8 weeks ago by Michael Love ♦ 22k
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differentail expression analysis with interaction terms
edger deseq2 design matrix interaction written 8 weeks ago by Assa Yeroslaviz • 1.4k • updated 8 weeks ago by James W. MacDonald ♦ 49k
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Limma design matrix separate channel analysis with same control
limma design matrix gene expression written 10 weeks ago by Guillaume Robert • 0 • updated 10 weeks ago by Gordon Smyth ♦ 37k
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Statistical background for computing intial estimates for the means of negative binomially distributed gene counts in DESeq2
deseq2 design matrix written 3 months ago by nikosbosse • 0
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DESeq2 package : Error in checkFullRank(modelMatrix) while designing multi factor
deseq2 rna-seq multiple factor design design matrix design model written 4 months ago by iammiso • 0 • updated 4 months ago by Michael Love ♦ 22k
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DESeq results gives all genes
deseq2 design matrix results written 4 months ago by evocanres • 0 • updated 4 months ago by Michael Love ♦ 22k
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EdgeR: With two treatments, is it equivalent to split into two different models vs. making the relevant pairwise comparisons?
edger contrast design matrix written 4 months ago by sdalin • 0 • updated 4 months ago by Gordon Smyth ♦ 37k
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EdgeR User Guide: use of glmLRT vs glmQLF in oral carcinoma Case Study
edger glmlrt() design matrix paired design glmqftest() written 5 months ago by oakhamwolf • 0
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Creating a design matrix
limma design matrix written 7 months ago by mahm • 20 • updated 5 months ago by Gordon Smyth ♦ 37k
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Limma Design Matrix for Paired Samples with Confouding Factors
limma design matrix paired samples confounding factors written 5 months ago by yuabrahamliu • 0 • updated 5 months ago by Aaron Lun • 23k
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Deseq2 design for one condition over 8 different time point
deseq deseq2 rna-seq design matrix written 6 months ago by thindmarsmission • 0 • updated 6 months ago by Michael Love ♦ 22k
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edgeR with related individuals?
edger design matrix related written 6 months ago by joanna.l.kelley • 0 • updated 6 months ago by James W. MacDonald ♦ 49k
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Design and Contrast Matrix for Linear Model. To Combine or not to Combine?
limma design and contrast matrix design matrix contrast matrix written 6 months ago by mikhael.manurung • 40 • updated 6 months ago by James W. MacDonald ♦ 49k
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Design Matrix with paired and independent samples plus RUVg Spike-in normalization
edger ruvseq design matrix paired samples written 8 months ago by ChrisM • 0 • updated 8 months ago by James W. MacDonald ♦ 49k
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Design matrix for a two-color experimental design testing for time effect on 3 treated cell-lines, each with its own time=0 control
microarray twochannel limma design matrix written 8 months ago by rubi • 90 • updated 8 months ago by Gordon Smyth ♦ 37k
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Design matrix for regressing gene expression on a continuous variable - age
limma R lmfit design matrix written 9 months ago by anupriya.dalmia • 0 • updated 9 months ago by Aaron Lun • 23k
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Am I on the right tracks with a 3 factor design in Limma?
biobase limma R design matrix written 9 months ago by reubenmcgregor88 • 0 • updated 9 months ago by Gordon Smyth ♦ 37k
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Test for differential variability with missMethyl (DiffVar) using block design
limma block design matrix missmethyl diffvar written 22 months ago by Simone • 170 • updated 10 months ago by lhuang7 • 30
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edgeR: How can I determine which factors significantly explain my DE genes?
edger differential gene expression design matrix model.matrix written 11 months ago by grabear • 0 • updated 11 months ago by Gordon Smyth ♦ 37k
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single continuous factor
edger design matrix continuous written 11 months ago by ashley.lu • 0 • updated 11 months ago by Gordon Smyth ♦ 37k
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Limma design matrix
limma design matrix written 11 months ago by R • 40 • updated 11 months ago by Gordon Smyth ♦ 37k
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RNAseq DESeq2 paired data design help
rnaseq deseq2 design matrix written 12 months ago by umlch • 0 • updated 11 months ago by Michael Love ♦ 22k
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DESEQ2 design with multiple conditions
deseq2 design matrix written 11 months ago by vrehaman • 0 • updated 11 months ago by Michael Love ♦ 22k
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DESeq account for using two different siRNA constructs to knockdown same gene
deseq2 design and contrast matrix multiple factor design design matrix written 12 months ago by khhsource • 0 • updated 12 months ago by Michael Love ♦ 22k
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