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Factor
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3
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11
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3.4k
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DESeq function taking too long
deseq2
deseq
factor
rnaseq
updated 6.7 years ago by
Peter Langfelder
★ 2.9k • written 6.7 years ago by
sup230
▴ 30
0
votes
2
replies
1.7k
views
GenomicRanges: `seqnames<-` can not work as expected
genomicranges
seqnames
factor
7.4 years ago
wcstcyx
▴ 30
2
votes
3
replies
1.6k
views
GenomicRanges_RaggedExperiment Error in as background, class mcol no method or default for coercing logical to factor
genomicranges
RaggedExperiment
coercion
logical
factor
updated 6.4 years ago by
Marcel Ramos
690 • written 6.4 years ago by
Taran
• 0
2
votes
2
replies
1.4k
views
How to extract factor levels of coldata from deseq object?
deseq2
levels
factor
colData
updated 5.1 years ago by
Michael Love
41k • written 5.1 years ago by
ariel
▴ 20
0
votes
0
replies
800
views
Package in R to determine which factor values are overrepresented within a particular factor of interest
R
overrrepresentation
factor
variable
factor enrichment
7.4 years ago
IOM
▴ 20
5
votes
4
replies
753
views
DESeq2 with multiple variable give me different results
Factor
Levels
Dispersionestimates
DESeq2
2.4 years ago
rafaelsolersanblas
▴ 50
0
votes
1
reply
627
views
DESeq2: Difference between two groups of conditions
factor
DESeq2
MultipleComparison
updated 2.4 years ago by
swbarnes2
★ 1.3k • written 2.4 years ago by
diegocastano182
• 0
7 results • Page
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Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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