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arrayWeights
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16
votes
0
replies
3.7k
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simultaneous use of robust and weighting methods in limma
limma
robust
arrayWeights
10.4 years ago • updated 7.9 years ago
Gordon Smyth
50k
7
votes
2
replies
2.2k
views
Appropriate explanation of the methodology behind arrayWeights function from limma R package
limma
arrayWeights
variance
sampleQuality
microarray
updated 8.5 years ago by
Ryan C. Thompson
★ 7.9k • written 8.6 years ago by
svlachavas
▴ 830
10
votes
4
replies
2.1k
views
limma-trend with random effects and/or array weights
limma-trend
duplicatecorrelation
arrayweights
limma
updated 6.6 years ago by
Gordon Smyth
50k • written 6.6 years ago by
maltethodberg
▴ 180
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 8.5 years ago by
Gordon Smyth
50k • written 8.5 years ago by
svlachavas
▴ 830
4
votes
5
replies
1.6k
views
limma: genas + arrayweights = OK?
limma
genas
arrayweights
updated 8.7 years ago by
Gordon Smyth
50k • written 8.7 years ago by
Guido Hooiveld
★ 3.9k
2
votes
2
replies
1.4k
views
Correct use of arrayWeights alongside duplicateCorrelation for microarrays in Limma?
limma
duplicatecorrelation
arrayweights
8.6 years ago
willj
▴ 30
1
vote
2
replies
1.4k
views
limma normalization and arrayWeights fold change
limma
arrayweights
logfoldchange
neqc
normalization
updated 7.9 years ago by
svlachavas
▴ 830 • written 7.9 years ago by
merella.stefania
• 0
4
votes
1
reply
1.4k
views
simultaneous use of robust and weighting methods in limma.
limma
arrayweights
robust
updated 9.4 years ago by
Gordon Smyth
50k • written 10.4 years ago by
Richard Friedman
▴ 80
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
0
votes
1
reply
841
views
Illumina array weights--arrayWeights or beadCountWeights
limma
arrayweights
updated 6.6 years ago by
Gordon Smyth
50k • written 6.6 years ago by
johnmcma
▴ 10
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Rory Stark
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I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
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Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
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