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2
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1
answer
69
views
1
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DESeq results gives all genes
deseq2 design matrix results written 7 days ago by evocanres • 0 • updated 7 days ago by Michael Love ♦ 20k
2
votes
1
answer
64
views
1
answer
EdgeR: With two treatments, is it equivalent to split into two different models vs. making the relevant pairwise comparisons?
edger contrast design matrix written 19 days ago by sdalin • 0 • updated 19 days ago by Gordon Smyth ♦ 35k
2
votes
2
answers
93
views
2
answers
EdgeR User Guide: use of glmLRT vs glmQLF in oral carcinoma Case Study
edger glmlrt() design matrix paired design glmqftest() written 5 weeks ago by oakhamwolf • 0
0
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1
answer
107
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1
answer
Creating a design matrix
limma design matrix written 3 months ago by mahm • 20 • updated 5 weeks ago by Gordon Smyth ♦ 35k
0
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1
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140
views
1
answer
Limma Design Matrix for Paired Samples with Confouding Factors
limma design matrix paired samples confounding factors written 6 weeks ago by yuabrahamliu • 0 • updated 6 weeks ago by Aaron Lun • 21k
4
votes
1
answer
158
views
1
answer
Deseq2 design for one condition over 8 different time point
deseq deseq2 rna-seq design matrix written 9 weeks ago by thindmarsmission • 0 • updated 9 weeks ago by Michael Love ♦ 20k
2
votes
1
answer
81
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1
answer
edgeR with related individuals?
edger design matrix related written 10 weeks ago by joanna.l.kelley • 0 • updated 10 weeks ago by James W. MacDonald ♦ 48k
5
votes
1
answer
144
views
1
answer
Design and Contrast Matrix for Linear Model. To Combine or not to Combine?
limma design and contrast matrix design matrix contrast matrix written 10 weeks ago by mikhael.manurung • 10 • updated 10 weeks ago by James W. MacDonald ♦ 48k
2
votes
1
answer
136
views
1
answer
Design Matrix with paired and independent samples plus RUVg Spike-in normalization
edger ruvseq design matrix paired samples written 3 months ago by ChrisM • 0 • updated 3 months ago by James W. MacDonald ♦ 48k
3
votes
1
answer
207
views
1
answer
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 4 months ago by rubi • 90 • updated 4 months ago by Gordon Smyth ♦ 35k
0
votes
1
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180
views
1
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Design matrix for regressing gene expression on a continuous variable - age
limma R lmfit design matrix written 4 months ago by anupriya.dalmia • 0 • updated 4 months ago by Aaron Lun • 21k
2
votes
1
answer
181
views
1
answer
Am I on the right tracks with a 3 factor design in Limma?
biobase limma R design matrix written 5 months ago by reubenmcgregor88 • 0 • updated 5 months ago by Gordon Smyth ♦ 35k
0
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1
answer
312
views
1
answer
Test for differential variability with missMethyl (DiffVar) using block design
limma block design matrix missmethyl diffvar written 17 months ago by Simone • 170 • updated 6 months ago by lhuang7 • 30
4
votes
1
answer
203
views
1
answer
edgeR: How can I determine which factors significantly explain my DE genes?
edger differential gene expression design matrix model.matrix written 6 months ago by grabear • 0 • updated 6 months ago by Gordon Smyth ♦ 35k
3
votes
2
answers
171
views
2
answers
single continuous factor
edger design matrix continuous written 7 months ago by ashley.lu • 0 • updated 6 months ago by Gordon Smyth ♦ 35k
0
votes
2
answers
155
views
2
answers
Limma design matrix
limma design matrix written 7 months ago by R • 40 • updated 7 months ago by Gordon Smyth ♦ 35k
0
votes
1
answer
197
views
1
answer
RNAseq DESeq2 paired data design help
rnaseq deseq2 design matrix written 7 months ago by umlch • 0 • updated 7 months ago by Michael Love ♦ 20k
1
vote
1
answer
237
views
1
answer
DESEQ2 design with multiple conditions
deseq2 design matrix written 7 months ago by vrehaman • 0 • updated 7 months ago by Michael Love ♦ 20k
0
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1
answer
217
views
1
answer
DESeq account for using two different siRNA constructs to knockdown same gene
deseq2 design and contrast matrix multiple factor design design matrix written 8 months ago by khhsource • 0 • updated 8 months ago by Michael Love ♦ 20k
3
votes
2
answers
238
views
2
answers
EdgeR model formula design matrix
edger design matrix paired samples written 8 months ago by aiko • 0 • updated 8 months ago by Aaron Lun • 21k
0
votes
1
answer
200
views
1
answer
differential expression analysis of cell subtypes mixture
edger deseq2 design matrix multifactorial design written 8 months ago by Assa Yeroslaviz • 1.4k • updated 8 months ago by Aaron Lun • 21k
0
votes
1
answer
243
views
1
answer
edgeR design matrix
edger design and contrast matrix design matrix written 9 months ago by cafelumiere12 • 20 • updated 8 months ago by Gordon Smyth ♦ 35k
1
vote
1
answer
209
views
1
answer
Deseq multifactor test design full rank error and how to determine one variable only effect.
deseq2 multiple factor design design matrix written 9 months ago by jaime.alvarez.benayas • 0
2
votes
2
answers
557
views
2
answers
LIMMA : group specific effect of a treatment while controlling for individual effect
limma limma design matrix design matrix limma-voom limma time-course written 9 months ago by SPbeginner • 0
1
vote
2
answers
414
views
2
answers
Microarray expression analysis for on factor taking account confounders (covariables)
limma design matrix matrix with covariables written 9 months ago by michel655 • 0 • updated 9 months ago by Aaron Lun • 21k
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