Showing : limma design matrix • reset
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LIMMA paired analysis adjusting for two continuous variables - microarray data
limma limma design matrix limma paired analysis microarray
7.2 years ago danielle.newby • 0
7
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8
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5.1k
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Model matrix for anova in limma
limma design matrix microarray limma
updated 8.3 years ago by ★ 13k • written 8.4 years ago by ▴ 60
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13
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LIMMA : group specific effect of a treatment while controlling for individual effect
limma-voom design matrix limma time-course limma design matrix limma
6.2 years ago SPbeginner • 0
3
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7
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2.3k
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Dealing with missing samples in limma and design matrix questions
limma paired analysis limma design matrix illumina beadchip
8.4 years ago clevy ▴ 10
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5
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Limma : design and contrast for a timecourse experiment with 2 cell lines
limma limma design matrix timecourse
8.4 years ago Pierre-François Roux • 0
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8.3k
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Limma design and contrast matrix
limma limma design matrix limma contrast matrix
8.1 years ago donny.dw • 0
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2
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1.1k
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Different results from limma depending on whether or not I have an intercept term in my model
limma lmfit voom limma design matrix voomwithqualityweights
updated 5.4 years ago by 50k • written 5.4 years ago by ▴ 10
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10
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1.6k
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Limma Design Matrix for two channel agilent arrays (direct experimental design)
Limma limma design matrix agilent twochannel
8.3 years ago pm2015 • 0
9
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8
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LIMMA producing too many significant results
LIMMA limma design matrix affy
updated 9.0 years ago by ★ 13k • written 9.0 years ago by ▴ 30
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2
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Limma --- linear model type I and type III SS problem
limma limma design matrix multiple factor design
updated 8.1 years ago by 50k • written 8.1 years ago by • 0
7
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1.6k
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Multi-way interaction design in limma
limma design matrix
7.5 years ago snamjoshi87 ▴ 40
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1.7k
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difference between two design matrix : how to choose ?
limma design matrix
9.3 years ago kippec • 0
11
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1.6k
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Correlation of a Linear Variable
limma limma design matrix
updated 9.1 years ago by 65k • written 9.1 years ago by ▴ 370
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4
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1.3k
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limma design matrix question
limma design and contrast matrix limma design matrix
updated 8.6 years ago by ★ 28k • written 8.6 years ago by ▴ 30
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1.3k
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limma:question on design for (paired?) 2 dye experiment
limma limma design matrix design and contrast matrix 2-dye
updated 8.5 years ago by 50k • written 8.5 years ago by ★ 3.9k
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13
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1.9k
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problem about (design matrix)
limma limma design matrix design matrix
updated 8.2 years ago by ★ 28k • written 8.2 years ago by • 0
4
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3
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3.3k
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limma: model/contrast matrix for 2x3 factorial design
limma multifactorial design design and contrast matrix limma design matrix limma contrast matrix
updated 8.1 years ago by 50k • written 8.1 years ago by • 0
1
vote
1
reply
844
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challenging design matrix
limma design matrix differential gene expression limma
updated 7.9 years ago by 50k • written 7.9 years ago by • 0
6
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5
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1.3k
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limma & design matrix: for 2-color dyes and 4-comparisons?
limma microarray limma design matrix
updated 7.9 years ago by 50k • written 7.9 years ago by • 0
7
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4
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3.2k
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Limma contrast for variables disease, gender and age
limma design matrix limma limma contrast matrix microarrays
7.8 years ago miyuki_iii ▴ 10
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1.3k
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Limma design matrix for three-treatment crossover study
limma design matrix limma limma contrast matrix crossover study
updated 7.5 years ago by ★ 28k • written 7.5 years ago by ▴ 10
2
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1
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1.1k
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Design matrix for multiple interacting continuous variables in limma
limma limma design matrix
updated 7.5 years ago by 65k • written 7.5 years ago by ▴ 10
1
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5
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1.8k
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Limma: paired multifactor analysis
limma limma design matrix limma contrast matrix limma paired analysis limma-voom
updated 7.3 years ago by 50k • written 7.3 years ago by ▴ 10
3
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5
replies
2.1k
views
Limma-voom contrast confusion
limma limma voom limma design matrix limma contrast matrix limma paired analysis
updated 7.2 years ago by ★ 28k • written 7.2 years ago by ▴ 10
2
votes
8
replies
5.1k
views
limma interaction contrasts
limma contrast matrix limma design matrix limma
updated 7.1 years ago by ★ 28k • written 7.1 years ago by ▴ 20
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3
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2.1k
views
Correct contrast for testing multi-level interaction effect in limma using combined factors design matrix
limma contrast matrix limma design matrix limma rna-seq limma voom
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
0
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1
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7.8k
views
DESeq2: how to construct the design matrix?
deseq2 design matrix limma design matrix
updated 9.0 years ago by 42k • written 9.0 years ago by • 0
3
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2
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8.5k
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Limma paired sample analysis
limma design matrix limma paired analysis limma
6.7 years ago anandprem1792 ▴ 20
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4
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2.8k
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Remove batch effect using individuals as random in the model in Limma
batch effect Coeficents non estimable block random effects limma design matrix
updated 6.5 years ago by ★ 28k • written 6.5 years ago by ▴ 10
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3
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Design matrix for longitudinal discordant twin analysis with limma
limma limma design matrix limma paired analysis twin analysis
updated 6.5 years ago by ★ 28k • written 6.5 years ago by • 0
2
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948
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should subgroups of comparisons be analyzed separately in Limma
limma design matrix
updated 6.5 years ago by ▴ 680 • written 6.5 years ago by ▴ 20
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6
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1.7k
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Building a biologically meaningful design matrix for limma/voom in a large RNASeq experiment
limma limma-voom limma design matrix confounders
updated 5.9 years ago by ★ 28k • written 5.9 years ago by ▴ 10
1
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1
reply
843
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Repeated measurements wtih limma
limma limma design matrix
updated 5.9 years ago by ★ 28k • written 5.9 years ago by ▴ 10
3
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2
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Creating a correct limma model with respect to contrast matrix and design matrix
limma limma contrast matrix limma design matrix
updated 5.7 years ago by ★ 28k • written 5.7 years ago by • 0
5
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1.7k
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limma Multi-level Experiments correcting for continuous covariates
limma epic methylation limma design matrix covariates
updated 5.7 years ago by ★ 28k • written 5.7 years ago by • 0
0
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2
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906
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LIMMA 2x2 with time
limma limma design matrix
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 50
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Design and contrast question limma (additive or nested or duplicateCorrelation())??
limma model matrix limma design matrix complex-design
updated 8.9 years ago by ★ 28k • written 8.9 years ago by ★ 3.9k
1
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1.7k
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limma modeling, paired samples: first disease type disappears from design matrix
limma design matrix limma
updated 9.1 years ago by 50k • written 9.9 years ago by ▴ 90
1
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1
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1.2k
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limma: advise needed on (nested?) design + interpretation of coefs
limm multiple factor design limma design matrix
updated 9.3 years ago by 50k • written 9.3 years ago by ★ 3.9k
9
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2
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Limma Model Matrix Understanding
limma limma design matrix model matrix
updated 9.0 years ago by ★ 28k • written 9.0 years ago by ▴ 370
3
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6
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1.7k
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Design that evaluates response to continuous and categorical variables
limma design and contrast matrix design matrix limma design matrix
updated 8.9 years ago by 65k • written 8.9 years ago by ▴ 10
8
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6
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1.7k
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Limma Model Design Question
limma design matrix limma
updated 8.9 years ago by 65k • written 8.9 years ago by ▴ 370
2
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1
reply
1.9k
views
design matrix for a 4 groups comparision time series experiment
limma design matrix
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
2
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6
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1.8k
views
Correct setup of a design matrix for a two-color, interwoven microarray loop design with dye swaps
limma design matrix dye-swap two-colour microarray limma
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
1
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5
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1.7k
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Difference between one-stage and two-stage analyses of multiple microarray experiments in limma
r limma limma design matrix
updated 8.7 years ago by 50k • written 8.7 years ago by • 0
3
votes
4
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1.4k
views
Problem regarding the explanation of log-fold changes of individual coefficients in limma after eBayes
limma logfoldchange limma design matrix paired samples affymetrix microarrays
updated 8.6 years ago by ★ 7.9k • written 8.6 years ago by ▴ 830
6
votes
9
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1.6k
views
Help with 2x2 factorial for using LIMMA
limma design matrix limma
updated 8.6 years ago by 65k • written 8.6 years ago by ▴ 50
6
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3
replies
5.5k
views
Calculating contrasts for continuous variable anad interaction effect in Limma
limma design matrix design and contrast matrix continuous interactions
updated 8.6 years ago by ★ 28k • written 8.6 years ago by ▴ 20
0
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0
replies
934
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ComBat covariate bias when building centroid based predictors
combat combat sva pamr limma design matrix sva
5.7 years ago jmsendoya • 0
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0
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723
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Limma making contrasts
limma design matrix design and contrast matrix
6.1 years ago matina • 0
50 results • Page 1 of 1
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Comment: EGSEA usage with microarray data (with vooma)? by Chris • 0
Hi Pekka, I also try EGSEA with microarray data. However, I got this error. Would you please have a suggestion? gsa = egsea.ma(numeric…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
> Any suggestions for methylation data segmentation? I think the same segmentation can be used.
Comment: deseq2 results by swbarnes2 ★ 1.3k
Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Mike Smith ★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
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