Showing : duplicatecorrelation • reset
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Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq duplicateCorrelation limma voom
11 days ago • updated 10 days ago Dylan.Sheerin • 0
3
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2
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1.5k
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Multi-level design RRBS analysis with voomLmFit
edgeR voomLmFit limma duplicateCorrelation voom
2.5 years ago altintas.ali • 0
1
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3
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973
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Limma: Differential expression with two batch effects , location and batch.
duplicatecorrelation BatchEffect limma corfit
updated 3.5 years ago by 50k • written 3.5 years ago by • 0
0
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1
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953
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Limma: Correct for location and batch effect
limma BatchEffect duplicatecorrelation block batch
updated 3.5 years ago by ★ 3.9k • written 3.5 years ago by • 0
8
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7
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4.8k
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Further clarification on when not to use duplicateCorrelation with technical replicates (RNA-seq)
limma duplicateCorrelation rna-seq technical replicates biological replicates
updated 4.6 years ago by ★ 28k • written 4.6 years ago by ▴ 50
5
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3
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1.2k
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Re-numbering blocking IDs on paired samples with duplicateCorrelation or design covariate
edger limma duplicateCorrelation batch effect
updated 4.9 years ago by ★ 28k • written 4.9 years ago by • 0
0
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2
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705
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Use of limma for multi-level experiments
limma duplicateCorrelation
updated 5.1 years ago by 65k • written 5.1 years ago by • 0
2
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4
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1.0k
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limma: treating multiple variables as random effects in duplicateCorrelation()
limma duplicateCorrelation
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
2
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4
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1.4k
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limma voom - time course experiment - multi level experiment
limma duplicatecorrelation limma voom
6.0 years ago • updated 5.2 years ago SPbeginner • 0
6
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4
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1.7k
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Limma Voom duplicateCorrelation Design
limma voom duplicatecorrelation
updated 5.5 years ago by ★ 28k • written 5.5 years ago by ▴ 30
10
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5
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2.5k
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limma-voom duplicateCorrelation once or twice, difference?
limma-voom duplicatecorrelation random effects
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 90
3
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4
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2.1k
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limma-voom WithQualityWeights and duplicateCorrelation in RNA-seq
voomwithqualityweights limma voom duplicatecorrelation
updated 5.9 years ago by ★ 28k • written 5.9 years ago by ▴ 80
1
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1
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1.6k
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Limma with paired samples and SVA
limma sva duplicatecorrelation estimatecellcounts
updated 6.6 years ago by ★ 28k • written 6.6 years ago by • 0
10
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4
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2.1k
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limma-trend with random effects and/or array weights
limma-trend duplicatecorrelation arrayweights limma
updated 6.7 years ago by 50k • written 6.7 years ago by ▴ 180
0
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7
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2.5k
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Applying sva is compatible with limma duplicateCorrelation?
limma-voom sva duplicatecorrelation
updated 6.8 years ago by ▴ 130 • written 6.8 years ago by ▴ 90
4
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3
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1.4k
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Accounting for both categorical and numerical possible confounding variables in the limmaVoom pipeline
limma limma voom duplicatecorrelation
6.9 years ago LR0306 ▴ 10
4
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4
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2.1k
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Using duplicateCorrelation to handle replicate samples
limma duplicatecorrelation replicates
7.0 years ago rwalke13 • 0
2
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11
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2.2k
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Multi-factorial design for patient-replicates from different time points using duplicate correlation LIMMA Voom
limma limma voom duplicatecorrelation
7.2 years ago alva.james • 0
6
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7
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1.8k
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duplicateCorrelation and Pearson Correlation
limma duplicatecorrelation
updated 7.6 years ago by ★ 28k • written 7.6 years ago by ▴ 150
4
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2
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2.3k
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Limma, remove batch effects and technical replicates
Limma removebatcheffect() duplicatecorrelation
7.6 years ago John ▴ 10
4
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4
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3.5k
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limma - technical replicates: duplicateCorrelation() or avereps()?
limma duplicatecorrelation avereps
updated 7.6 years ago by 50k • written 7.6 years ago by ★ 4.0k
3
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3
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2.5k
views
Duplicate Correlation with technical replicates
limma duplicatecorrelation
updated 7.7 years ago by ★ 7.9k • written 7.7 years ago by • 0
3
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4
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1.9k
views
Random effects with limma's camera()
limma camera duplicatecorrelation
updated 8.3 years ago by 50k • written 8.3 years ago by ▴ 30
8
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8
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4.4k
views
Limma: fit a model with duplicateCorrelation()
limma microarray duplicatecorrelation technical replicates linear model
updated 8.3 years ago by ★ 28k • written 8.3 years ago by ▴ 150
2
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6
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2.8k
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Understanding and creating various comparisons with model.matrix in limma regarding microarrays
limma microarray multifactorial design duplicatecorrelation model.matrix
8.4 years ago Konstantinos Yeles ▴ 80
0
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1
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1.3k
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Appropriate selection of DE list in limma before and after implementation of arrayWeights in conjuction with duplicateCorrelation functions
limma microarray multifactorial design duplicatecorrelation arrayweights
8.4 years ago svlachavas ▴ 830
4
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8
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1.7k
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Combination of duplicateCorrelation with arrayWeights to increase power for DE detection in multilevel experiments
limma duplicatecorrelation arrayweights microarray
updated 8.6 years ago by 50k • written 8.6 years ago by ▴ 830
0
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0
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1.3k
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Possible methodologies for constructing multi-level comparisons in limma
limma paired analysis multiple factor design affymetrix microarrays duplicatecorrelation
8.6 years ago svlachavas ▴ 830
2
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2
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1.5k
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Correct use of arrayWeights alongside duplicateCorrelation for microarrays in Limma?
limma duplicatecorrelation arrayweights
8.6 years ago willj ▴ 30
1
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7
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3.0k
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Technical details of DiffBind correlation analysis
diffbind duplicatecorrelation
updated 3 months ago by ★ 5.2k • written 9.5 years ago by • 0
1
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6
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3.5k
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Limma: advice needed for best approach for joint paired and unpaired analyses in unbalanced intervention study
limma paired unpaired duplicateCorrelation
updated 9.6 years ago by ▴ 10 • written 9.6 years ago by ★ 4.0k
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Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
Thanks so much for your comment. Yes, this makes sense to me, especially since the effect of the drug is subtle. But it raises a larger con…
Answer: ERROR; return code from pthread_create() is 22 by James W. MacDonald 65k
Seems OK to me. ``` > dat <- ReadAffy() > dat AffyBatch object size of arrays=744x744 features (20 kb) cdf=HG-U219 (49386 affyids) …
Answer: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 65k
Unless you think the different lines or tissues will have very different within-group variances, you should just analyze together and make …
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments? by James W. MacDonald 65k
It appears that batch is orthogonal to the treatment, so you can just fit a batch effect in your model.
Answer: Control group between 2 batches have different expression in RNAseq data by James W. MacDonald 65k
Since batch is orthogonal to the treatment, you just add a batch factor to your model.
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Answer: DESeq2- Mysterious interaction suppresses DEGs
Answer: Subsetting RNAseq data | voomaByGroup()
biomaRt not working - lazy table error
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
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