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ExperimentalDesign
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reset
2
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3
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2.6k
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Two factor design including interaction effect with DESeq2 in R
DESeq2
RNASeqData
deseq2
ExperimentalDesign
updated 2.0 years ago by
swbarnes2
★ 1.4k • written 2.0 years ago by
Sam
• 0
2
votes
1
reply
1.0k
views
edgeR with Successive Differences Contrast Coding?
hypothesisTesting
contrastCoding
edger
ExperimentalDesign
expressionDifferences
updated 2.5 years ago by
Gordon Smyth
53k • written 2.5 years ago by
Hannes
• 0
1
vote
1
reply
1.2k
views
Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 3.1 years ago by
ATpoint
★ 5.0k • written 3.2 years ago by
Mohamed
▴ 30
1
vote
2
replies
1.7k
views
How to properly use DESeq2 for an experiment
ExperimentalDesign
RNASeq
DifferentialExpression
DESeq2
updated 3.5 years ago by
Michael Love
43k • written 3.5 years ago by
Aurélien
• 0
1
vote
2
replies
1.5k
views
How to answer reviewers question of physical cell size influencing single cell results?
SingleCellExperiment
scater
ExperimentalDesign
scran
3.7 years ago
msn
▴ 10
1
vote
4
replies
2.1k
views
DiffBind analysis on ChIP-Seq qata and design matrix
ChIPSeq
DiffBind
ExperimentalDesign
4.7 years ago
SFn
• 0
6 results • Page
1 of 1
Recent ...
Replies
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
by
Kevin Blighe
★ 4.0k
Hello Matthew, Thanks for the detailed description-this sounds like a classic challenge in sncRNA analysis, where piRNAs (and other tsRN…
Answer: VariantAnnotation does escape = within header string quotes
by
Kevin Blighe
★ 4.0k
Hi, Thanks for the minimal reproduction - this is very clear and confirms a bug in `VariantAnnotation::writeVcf()`. The issue is that th…
Answer: Setting up a DESeq2 Design with Paired Data
by
Kevin Blighe
★ 4.0k
Hello, Your design formula looks mostly correct to me, but I believe that `vessel_n` should be `replicate` (or whatever unique identifie…
Comment: Failure to download resources (MeSHDb) from AnnotationHub
by
Steve Lianoglou
★ 13k
That fixed it, thanks Lori!
Comment: Suppress warning in RHDF5 write
by
nicolas.lhuillier
• 0
Thanks a lot for the quick and effective reply. I had tried "suppressWarnings" but not "suppressMessages".
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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