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Time Series
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reset
1
vote
8
replies
1.8k
views
time series, block by patient, between and within comparisons limma-voom
rna-seq
time series
patient
limma-voom
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
aec
▴ 90
4
votes
7
replies
3.2k
views
LIMMA time series spline model.matrix design setup
limma
design
model.matrix
time series
splines
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
tleona3
• 0
0
votes
4
replies
1.3k
views
DESeq2 multifactor formula design
deseq2
time series
multiple factor design
updated 5.4 years ago by
Michael Love
42k • written 5.5 years ago by
Jane
• 0
1
vote
2
replies
1.3k
views
DESeq2: RNA-Seq time series analysis after removal of batch effect
deseq2
time series
remove batch effect
5.2 years ago
Nicola
• 0
1
vote
2
replies
2.0k
views
DeSEQ2- What is the difference between Gene Clustering and using LRT for Time Series experiment WITHOUT treatments
deseq2
Time Series
Gene Clustering
LRT
ATACseq
updated 5.2 years ago by
Michael Love
42k • written 5.2 years ago by
kaiser.karim
• 0
1
vote
2
replies
1.5k
views
Pair-wise Limma Analysis with time series data and two levels (control and treatment)
limma
microarray
time series
DEG
paired
updated 4.6 years ago by
Gordon Smyth
50k • written 4.6 years ago by
kawess
• 0
1
vote
2
replies
842
views
Time series experiment analysis in DEseq2 without T=0 and three independent experiments with linked samples
deseq2
rnaseq
repeated measures
time series
design formula
updated 4.3 years ago by
Michael Love
42k • written 4.3 years ago by
Dorien
▴ 10
3
votes
2
replies
2.2k
views
DESeq2 time course model
deseq2
time series
time course
updated 3.7 years ago by
Michael Love
42k • written 3.7 years ago by
bsierieb
▴ 10
7
votes
2
replies
3.2k
views
Incorporating RUVSeq factors of unwanted variation in DESeq2 time course analysis
deseq2
ruvseq
spike-in
time course
time series
updated 6.4 years ago by
davide risso
▴ 950 • written 6.4 years ago by
staceyborrego
▴ 20
0
votes
2
replies
1.0k
views
Design matrix choice for time series experiment using limma
limma
time series
help
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
rm1238
• 0
0
votes
0
replies
667
views
clustering of scRNAseq gene expression at multiple time points
scRNA-seq
time series
3.8 years ago
Bogdan
▴ 670
1
vote
0
replies
868
views
Job:
Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics
gene expression
time series
plant biology
circadian
Job
4.6 years ago
dezer
▴ 10
12 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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