Showing : duplicatecorrelation • reset
2
votes
12
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1.6k
views
limma technical repeat correction
limma lmer duplicateCorrelation technicalrepeats
6 weeks ago • updated 15 days ago john • 0
4
votes
6
replies
1.1k
views
Zero intra-block correlation in RRBS analysis using voomLmFit with block
limma duplicateCorrelation edgeR modelMatrixMeth voomLmFit
7 weeks ago • updated 5 weeks ago altintas.ali • 0
1
vote
2
replies
617
views
Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq duplicateCorrelation limma voom
7 months ago Dylan.Sheerin • 0
3
votes
2
replies
1.9k
views
Multi-level design RRBS analysis with voomLmFit
edgeR voomLmFit limma duplicateCorrelation voom
updated 6 weeks ago by 52k • written 3.0 years ago by • 0
1
vote
3
replies
1.2k
views
Limma: Differential expression with two batch effects , location and batch.
duplicatecorrelation BatchEffect limma corfit
updated 4.0 years ago by 52k • written 4.0 years ago by • 0
0
votes
1
reply
1.2k
views
Limma: Correct for location and batch effect
limma BatchEffect duplicatecorrelation block batch
updated 4.0 years ago by ★ 4.0k • written 4.0 years ago by • 0
8
votes
7
replies
6.2k
views
Further clarification on when not to use duplicateCorrelation with technical replicates (RNA-seq)
limma duplicateCorrelation rna-seq technical replicates biological replicates
updated 5.2 years ago by ★ 28k • written 5.2 years ago by ▴ 50
5
votes
3
replies
1.4k
views
Re-numbering blocking IDs on paired samples with duplicateCorrelation or design covariate
edger limma duplicateCorrelation batch effect
updated 5.5 years ago by ★ 28k • written 5.5 years ago by • 0
0
votes
2
replies
840
views
Use of limma for multi-level experiments
limma duplicateCorrelation
updated 5.6 years ago by 67k • written 5.6 years ago by • 0
2
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4
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1.2k
views
limma: treating multiple variables as random effects in duplicateCorrelation()
limma duplicateCorrelation
updated 5.6 years ago by 52k • written 5.6 years ago by • 0
2
votes
4
replies
1.6k
views
limma voom - time course experiment - multi level experiment
limma duplicatecorrelation limma voom
6.5 years ago • updated 5.7 years ago SPbeginner • 0
6
votes
4
replies
2.1k
views
Limma Voom duplicateCorrelation Design
limma voom duplicatecorrelation
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 30
10
votes
5
replies
2.9k
views
limma-voom duplicateCorrelation once or twice, difference?
limma-voom duplicatecorrelation random effects
updated 6.1 years ago by 52k • written 6.1 years ago by ▴ 100
3
votes
4
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2.5k
views
limma-voom WithQualityWeights and duplicateCorrelation in RNA-seq
voomwithqualityweights limma voom duplicatecorrelation
updated 6.4 years ago by ★ 28k • written 6.4 years ago by ▴ 80
1
vote
1
reply
1.8k
views
Limma with paired samples and SVA
limma sva duplicatecorrelation estimatecellcounts
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
10
votes
4
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2.4k
views
limma-trend with random effects and/or array weights
limma-trend duplicatecorrelation arrayweights limma
updated 7.2 years ago by 52k • written 7.2 years ago by ▴ 180
0
votes
7
replies
2.8k
views
Applying sva is compatible with limma duplicateCorrelation?
limma-voom sva duplicatecorrelation
updated 7.4 years ago by ▴ 130 • written 7.4 years ago by ▴ 90
4
votes
3
replies
1.6k
views
Accounting for both categorical and numerical possible confounding variables in the limmaVoom pipeline
limma limma voom duplicatecorrelation
7.4 years ago LR0306 ▴ 10
4
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4
replies
2.6k
views
Using duplicateCorrelation to handle replicate samples
limma duplicatecorrelation replicates
7.6 years ago rwalke13 • 0
2
votes
11
replies
2.5k
views
Multi-factorial design for patient-replicates from different time points using duplicate correlation LIMMA Voom
limma limma voom duplicatecorrelation
7.7 years ago alva.james • 0
6
votes
7
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2.0k
views
duplicateCorrelation and Pearson Correlation
limma duplicatecorrelation
updated 8.1 years ago by ★ 28k • written 8.1 years ago by ▴ 150
4
votes
2
replies
2.6k
views
Limma, remove batch effects and technical replicates
Limma removebatcheffect() duplicatecorrelation
8.2 years ago John ▴ 10
4
votes
4
replies
3.9k
views
limma - technical replicates: duplicateCorrelation() or avereps()?
limma duplicatecorrelation avereps
updated 8.2 years ago by 52k • written 8.2 years ago by ★ 4.1k
3
votes
3
replies
2.8k
views
Duplicate Correlation with technical replicates
limma duplicatecorrelation
updated 8.3 years ago by ★ 7.9k • written 8.3 years ago by • 0
3
votes
4
replies
2.2k
views
Random effects with limma's camera()
limma camera duplicatecorrelation
updated 8.8 years ago by 52k • written 8.8 years ago by ▴ 30
8
votes
8
replies
4.8k
views
Limma: fit a model with duplicateCorrelation()
limma microarray duplicatecorrelation technical replicates linear model
updated 8.9 years ago by ★ 28k • written 8.9 years ago by ▴ 150
2
votes
6
replies
3.0k
views
Understanding and creating various comparisons with model.matrix in limma regarding microarrays
limma microarray multifactorial design duplicatecorrelation model.matrix
9.0 years ago Konstantinos Yeles ▴ 80
0
votes
1
reply
1.4k
views
Appropriate selection of DE list in limma before and after implementation of arrayWeights in conjuction with duplicateCorrelation functions
limma microarray multifactorial design duplicatecorrelation arrayweights
9.0 years ago svlachavas ▴ 840
4
votes
8
replies
1.9k
views
Combination of duplicateCorrelation with arrayWeights to increase power for DE detection in multilevel experiments
limma duplicatecorrelation arrayweights microarray
updated 9.1 years ago by 52k • written 9.1 years ago by ▴ 840
0
votes
0
replies
1.4k
views
Possible methodologies for constructing multi-level comparisons in limma
limma paired analysis multiple factor design affymetrix microarrays duplicatecorrelation
9.2 years ago svlachavas ▴ 840
2
votes
2
replies
1.6k
views
Correct use of arrayWeights alongside duplicateCorrelation for microarrays in Limma?
limma duplicatecorrelation arrayweights
9.2 years ago willj ▴ 30
1
vote
7
replies
3.3k
views
Technical details of DiffBind correlation analysis
diffbind duplicatecorrelation
updated 10 months ago by ★ 5.2k • written 10.1 years ago by • 0
1
vote
6
replies
3.7k
views
Limma: advice needed for best approach for joint paired and unpaired analyses in unbalanced intervention study
limma paired unpaired duplicateCorrelation
updated 10.1 years ago by ▴ 10 • written 10.1 years ago by ★ 4.1k
33 results • Page 1 of 1
Recent ...
Replies
Comment: Running multiple KNN queries in parallel by SamGG ▴ 360
Thank you for your detailed answer, I appreciate it and your work.
Answer: Running multiple KNN queries in parallel by Aaron Lun ★ 28k
That is correct - you can't pass the prebuilt objects to different processes. Maybe `MulticoreParam()` might work on POSIX systems but I'm …
Answer: RSubread output significantly different from bash Subread output by Gordon Smyth 52k
The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…
Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square by Michael Love 43k
I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…
Comment: sva: get a sv for RIN scores by gabriel.hoffman ▴ 170
Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.
Votes
Answer: Running multiple KNN queries in parallel
Answer: Running multiple KNN queries in parallel
Answer: RSubread output significantly different from bash Subread output
Answer: RSubread output significantly different from bash Subread output
Answer: How to annotate a limma Elist raw class object with an annotation file
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