Showing : duplicateCorrelation • reset
2
votes
11
replies
2.2k
views
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
8
votes
8
replies
4.4k
views
Limma: fit a model with duplicateCorrelation()
limma microarray duplicatecorrelation technical replicates linear model
updated 8.4 years ago by ★ 28k • written 8.4 years ago by ▴ 150
4
votes
8
replies
1.7k
views
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
6
votes
7
replies
1.8k
views
duplicateCorrelation and Pearson Correlation
limma duplicatecorrelation
updated 7.6 years ago by ★ 28k • written 7.6 years ago by ▴ 150
8
votes
7
replies
4.9k
views
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
0
votes
7
replies
2.5k
views
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
1
vote
7
replies
3.0k
views
Technical details of DiffBind correlation analysis
diffbind duplicatecorrelation
updated 4 months ago by ★ 5.2k • written 9.5 years ago by • 0
1
vote
6
replies
3.5k
views
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
2
votes
6
replies
2.8k
views
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
10
votes
5
replies
2.6k
views
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
6
votes
4
replies
1.7k
views
Limma Voom duplicateCorrelation Design
limma voom duplicatecorrelation
updated 5.5 years ago by ★ 28k • written 5.5 years ago by ▴ 30
10
votes
4
replies
2.1k
views
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
2
votes
4
replies
1.4k
views
limma voom - time course experiment - multi level experiment
limma duplicatecorrelation limma voom
6.0 years ago • updated 5.2 years ago SPbeginner • 0
3
votes
4
replies
2.1k
views
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
4
votes
4
replies
3.5k
views
limma - technical replicates: duplicateCorrelation() or avereps()?
limma duplicatecorrelation avereps
updated 7.7 years ago by 50k • written 7.7 years ago by ★ 4.0k
3
votes
4
replies
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
4
votes
4
replies
2.1k
views
Using duplicateCorrelation to handle replicate samples
limma duplicatecorrelation replicates
7.0 years ago rwalke13 • 0
2
votes
4
replies
1.0k
views
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
3
votes
3
replies
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
4
votes
3
replies
1.4k
views
Accounting for both categorical and numerical possible confounding variables in the limmaVoom pipeline
limma limma voom duplicatecorrelation
6.9 years ago LR0306 ▴ 10
1
vote
3
replies
978
views
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
5
votes
3
replies
1.2k
views
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
1
vote
2
replies
301
views
Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq duplicateCorrelation limma voom
15 days ago • updated 14 days ago Dylan.Sheerin • 0
2
votes
2
replies
1.5k
views
Correct use of arrayWeights alongside duplicateCorrelation for microarrays in Limma?
limma duplicatecorrelation arrayweights
8.6 years ago willj ▴ 30
4
votes
2
replies
2.3k
views
Limma, remove batch effects and technical replicates
Limma removebatcheffect() duplicatecorrelation
7.6 years ago John ▴ 10
0
votes
2
replies
708
views
Use of limma for multi-level experiments
limma duplicateCorrelation
updated 5.1 years ago by 66k • written 5.1 years ago by • 0
3
votes
2
replies
1.5k
views
Multi-level design RRBS analysis with voomLmFit
edgeR voomLmFit limma duplicateCorrelation voom
2.5 years ago altintas.ali • 0
0
votes
1
reply
958
views
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
0
votes
1
reply
1.3k
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
8.4 years ago svlachavas ▴ 830
1
vote
1
reply
1.6k
views
Limma with paired samples and SVA
limma sva duplicatecorrelation estimatecellcounts
updated 6.6 years ago by ★ 28k • written 6.6 years ago by • 0
0
votes
0
replies
1.3k
views
Possible methodologies for constructing multi-level comparisons in limma
limma paired analysis multiple factor design affymetrix microarrays duplicatecorrelation
8.6 years ago svlachavas ▴ 830
31 results • Page 1 of 1
Recent ...
Replies
Comment: Volcano plot of scRNA-seq data not "centered" by tjl • 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
Wait a minute. The `oligo` package is *supposed to* be using `zlibbioc`, but apparently it is not. I get the same thing as you do, where it…
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
There is the `zlibbioc` package that provides the headers for zlib 1.2.5, that I think you should be able to use, although that would requi…
Answer: GSVA function by Robert Castelo ★ 3.3k
Hi, We recommend to input normalized expression values in logarithmic scale to GSVA. We also recommend to use the latest release of the …
Comment: Cannot install oligo on Fedora by Guido Hooiveld ★ 4.0k
Aha, that is a good one! Starting from release 40, as I just found out, Fedora apparently is not including/using `zlib` as such anymore, b…
Votes
Answer: How to run allelic imbalance in apeglm
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Answer: Documenting resources in an `ExperimentHub` package?
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Seurat/DESeq2 - single cell RNA-seq differential expression
Awards • All
Popular Question to Robert Castelo ★ 3.3k
Popular Question to kevin.rue ▴ 350
Popular Question to Wei Shi ★ 3.6k
Popular Question to Gordon Smyth 50k
Popular Question to jovel_juan ▴ 30
Locations • All
United States, 4 minutes ago
WEHI, Melbourne, Australia, 21 minutes ago
United States, 31 minutes ago
United States, 1 hour ago
San Diego, 1 hour ago
Traffic: 348 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6