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Nested design
•
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2
votes
13
replies
1.5k
views
How to account for population variation within regions in EdgeR?
edger
multifactor
nested design
7.8 years ago • updated 7.7 years ago
swaegers.janne
• 0
0
votes
3
replies
1.4k
views
How to remove nested batch effects with removeBatchEffect?
edgeR
removeBatchEffect
nested design
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
Jenny Drnevich
★ 2.0k
5
votes
4
replies
1.2k
views
Finding genes respond differently to treatment between many genotype comparison
edgeR
nested design
differential expression
updated 6.0 years ago by
Gordon Smyth
50k • written 6.1 years ago by
chiayi
• 0
1
vote
1
reply
1.0k
views
edgeR: Nested interactions model matrix MISSING COEFFICIENTS
limma
edger
nested design
updated 7.7 years ago by
Ryan C. Thompson
★ 7.9k • written 7.7 years ago by
xluong
• 0
2
votes
14
replies
1.6k
views
How to account for population variation within regions in DESeq2?
multifactor
nested design
deseq2
7.7 years ago • updated 7.6 years ago
swaegers.janne
• 0
0
votes
5
replies
1.7k
views
Can I add subject level effect in DESeq2 and pull the correct contrast?
deseq2
interaction model
nested design
7.2 years ago • updated 7.1 years ago
glocke01
▴ 10
0
votes
3
replies
4.6k
views
DESeq2 Multiple Variable Nested Design
deseq2
multiple factor design
nested design
interaction term
updated 7.0 years ago by
Michael Love
42k • written 7.0 years ago by
zahra.aboukhalil
• 0
0
votes
3
replies
977
views
Is this procedure necessary in DESeq2 for my data
deseq2
multiple factor design
nested design
6.3 years ago
michael.steffen
▴ 20
4
votes
4
replies
1.3k
views
edgeR: Choice of reference group in nested model
edgeR
model.matrix
nested design
reference group
updated 6.1 years ago by
Aaron Lun
★ 28k • written 6.1 years ago by
ri.lars
▴ 40
1
vote
1
reply
1.1k
views
post hoc analysis on nested model
nested design
post hoc
edgeR
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
ashley.lu
• 0
0
votes
3
replies
2.2k
views
Individuals nested within blocks in DESeq2
deseq2
nested design
updated 5.8 years ago by
Michael Love
42k • written 5.8 years ago by
xie186
• 0
3
votes
1
reply
2.4k
views
Nested design in DESeq2
deseq2
Nested design
random variable
updated 9.0 years ago by
Michael Love
42k • written 9.0 years ago by
Silva
• 0
1
vote
2
replies
1.2k
views
DESeq2 design nested or time course
deseq2
nested design
updated 5.7 years ago by
Michael Love
42k • written 5.7 years ago by
katarina.truve
• 0
1
vote
1
reply
1.2k
views
EdgeR--multi-factorial nested design
edger
nested design
rnaseq
updated 8.9 years ago by
Ryan C. Thompson
★ 7.9k • written 8.9 years ago by
mrwarner09
• 0
4
votes
5
replies
2.5k
views
edgeR- DE analysis with no replicates
edger
differential gene expression
without replicate
nested design
help
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
knipehf
• 0
15 results • Page
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
by
Marcel Ramos
690
`BiocManager` does not install local packages. It only installs Bioconductor, CRAN, and GitHub ones. You should install local packages w…
Comment: error running enricher from clusterprofiler
by
Yael
• 0
It worked!!! Thanks alot, i think something in the gene_list wasnt right... Thanks agian
Comment: Create protein sequences including variants from a VCF file
by
Yun
• 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization?
by
Daniel
• 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
by
Patadù
▴ 10
I have arranged the code again following the other post and also the script you suggested. Now, I managed to install `org.Vdahliae.eg.db`. …
Votes
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Answer: Trim/Filter out-of-bounds GRanges
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
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