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Showing :
variancePartition
•
reset
1
vote
2
replies
220
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
19 days ago • updated 18 days ago
Le
• 0
1
vote
4
replies
610
views
BiocParallel serialization errors on Windows
variancePartition
BiocParallel
4 months ago
hayleyw
• 0
1
vote
7
replies
846
views
DuplicateCorrelation() block by duplicate sample or by cell line ?
variancePartition
RNASeqData
limma
BulkRNAseq
RNASeq
updated 5 months ago by
Gordon Smyth
50k • written 7 months ago by
Gimena
• 0
0
votes
9
replies
845
views
How long does it usually take to complete dream() from start to finish?
variancePartition
mixedmodel
dream
8 months ago
hayleyw
• 0
1
vote
5
replies
1.5k
views
How many parameters should be included in the model design for deseq2?
DESeq2
variancePartition
13 months ago • updated 12 months ago
Weiqian
▴ 10
1
vote
4
replies
693
views
Repeated Measures-Cross Over Study for RNAseq data using variancePartition::dream
RNAseq
variancePartition
edgeR
dream
14 months ago • updated 13 months ago
DH
• 0
0
votes
5
replies
961
views
Semi-technical replicates and voom sample weights
variancePa
variancePartition
limma-voom
dream
updated 14 months ago by
Gordon Smyth
50k • written 14 months ago by
Le
• 0
0
votes
0
replies
451
views
Argument is of length zero in variancePartition/Dream
expression
variancePartition
edgeR
21 months ago
Jonathan
• 0
1
vote
1
reply
1.3k
views
Repeated measures RNAseq analysis (edgeR or limma-voom)
edgeR
limma
variancePartition
updated 2.8 years ago by
Gordon Smyth
50k • written 2.8 years ago by
jackgisby
• 0
1
vote
3
replies
1.3k
views
limma - contrast matrix hypothesis testing
limma
variancePartition
updated 2.9 years ago by
Gordon Smyth
50k • written 2.9 years ago by
jarod
▴ 30
1
vote
0
replies
792
views
What are cov.coefficients and cov.coefficients.list returned by dream()?
variancePartition
limma
3.0 years ago
Junghoon
▴ 10
0
votes
1
reply
1.1k
views
Excessive memory requirement of variancePartition::dream()
BiocParallel
limma
variancePartition
3.0 years ago • updated 2.9 years ago
Junghoon
▴ 10
0
votes
1
reply
1.1k
views
Error while running variancePartition::dream()
variancePartition
limma
BiocParallel
3.0 years ago
Junghoon
▴ 10
8
votes
11
replies
2.4k
views
dream vignette says limma-voom repeated measures two-group comparison needs two duplicateCorrelation rounds which differs from limma user's guide and…
dream
variancePartition
limma
differential expression
repeated measures
updated 4.6 years ago by
Gordon Smyth
50k • written 4.6 years ago by
hermidalc
▴ 20
3
votes
8
replies
1.5k
views
Results from variancePartition not matching those from lme4
variancepartition
lme4
mixedmodel
updated 4.6 years ago by
gabriel.hoffman
▴ 110 • written 4.7 years ago by
c.taylor
• 0
4
votes
3
replies
1.7k
views
Blocking factor in limma/voom vs. variancePartition/dream analysis.
limma
voom
variancePartition
dream
updated 4.6 years ago by
gabriel.hoffman
▴ 110 • written 4.9 years ago by
Ben
▴ 50
16 results • Page
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Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
by
James W. MacDonald
65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Answer: Extremely small p-values using Limma for proteomic data
by
James W. MacDonald
65k
If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…
Comment: Memory errors using read.bismark?
by
Juan Higareda
• 0
Thanks a lot Peter, We solved the problem, IT had implemented a policy of RAM usage that started a conflict with any RAM-hungry process, m…
Answer: meffil.snp.concordance
by
James W. MacDonald
65k
This support site is meant to help people with technical questions about Bioconductor packages. The `meffil` package is not Bioconductor, n…
Answer: minfi latest update for EPIC V2 chip
by
James W. MacDonald
65k
Zuguang Gu submitted both of those packages as part of the current release, and I submitted a PR for `minfi` so it will now distinguish the…
Votes
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
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