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factor
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reset
3
votes
11
replies
3.5k
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DESeq function taking too long
deseq2
deseq
factor
rnaseq
updated 6.8 years ago by
Peter Langfelder
★ 3.0k • written 6.8 years ago by
sup230
▴ 30
0
votes
2
replies
1.8k
views
GenomicRanges: `seqnames<-` can not work as expected
genomicranges
seqnames
factor
7.5 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 6.5 years ago by
Marcel Ramos
690 • written 6.5 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 5.2 years ago by
Michael Love
41k • written 5.2 years ago by
ariel
▴ 20
0
votes
0
replies
817
views
Package in R to determine which factor values are overrepresented within a particular factor of interest
R
overrrepresentation
factor
variable
factor enrichment
7.5 years ago
IOM
▴ 20
5
votes
4
replies
792
views
DESeq2 with multiple variable give me different results
Factor
Levels
Dispersionestimates
DESeq2
2.5 years ago
rafaelsolersanblas
▴ 50
0
votes
1
reply
669
views
DESeq2: Difference between two groups of conditions
factor
DESeq2
MultipleComparison
updated 2.5 years ago by
swbarnes2
★ 1.3k • written 2.5 years ago by
diegocastano182
• 0
7 results • Page
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Comment: Help with running egsea()
by
James W. MacDonald
65k
I don't understand the last question, but do look at the msigdb.gsets argument to `buildIdx` in the help page for that function.
Votes
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
Answer: How to save the DEXSeq results
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