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complex-design
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3
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Complicated unbalanced block DOE with partially paired samples and analysis
limma
complex-design
paired design
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
ML18
▴ 10
0
votes
5
replies
2.6k
views
getting sample size for RNAseq experiment
rnaseqpower
sspa
sample size
sequencing
complex-design
updated 9.0 years ago by
m.van_iterson
▴ 20 • written 9.0 years ago by
roser.navarro
• 0
9
votes
21
replies
6.1k
views
limma - complex design with paired samples, sex and batch effect
limma
paired samples
complex-design
9.2 years ago • updated 9.1 years ago
aec
▴ 90
7
votes
6
replies
4.4k
views
Design and contrast question limma (additive or nested or duplicateCorrelation())??
limma
model matrix
limma design matrix
complex-design
updated 9.7 years ago by
Aaron Lun
★ 28k • written 9.7 years ago by
Guido Hooiveld
★ 4.1k
1
vote
1
reply
3.2k
views
Factorial Design with DESeq2; contrast problem.
deseq2
multiple factor design
complex-design
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
sifujio
• 0
1
vote
3
replies
7.1k
views
Combat - error - system is computationally singular
combat
software error
rnaseq
complex-design
updated 10.3 years ago by
Peter Langfelder
★ 3.0k • written 10.3 years ago by
Stefano Mangiola
▴ 20
7
votes
11
replies
2.6k
views
Using edgeR on pre-post treatment control design
edgeR
complex-design
updated 10.4 years ago by
James W. MacDonald
68k • written 10.4 years ago by
lwc628
▴ 20
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Answer: SingleR with multiple single cell references
by
Aaron Lun
★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies
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ATpoint
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The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
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