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genesetenrichment
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12
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13
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8.4k
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GSEA many significant gene sets despite no differentially expressed genes
GSEA
GeneSetEnrichment
DifferentialExpression
updated 7 months ago by
ATpoint
★ 4.4k • written 2.5 years ago by
nhaus
▴ 70
4
votes
4
replies
4.2k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler
GO
GO enrichment
genesetenrichment
updated 6 months ago by
jandrade
• 0 • written 6.8 years ago by
Huang, Lei [BSD] - CRI
▴ 20
2
votes
2
replies
537
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase
fgsea
msigdb
GeneSetEnrichment
16 days ago • updated 15 days ago
Assa Yeroslaviz
★ 1.5k
1
vote
2
replies
540
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
5 months ago
Ana
• 0
0
votes
1
reply
285
views
How to rank DEG for GSEA using DEseq2 result ?
DESeq2
limma
GeneSetEnrichment
updated 9 weeks ago by
ATpoint
★ 4.4k • written 9 weeks ago by
picasa1983
• 0
0
votes
1
reply
531
views
Gene set enrichment analysis
clusterProfiler
GeneSetEnrichment
updated 4 months ago by
Guido Hooiveld
★ 4.1k • written 4 months ago by
aogunbaw
• 0
0
votes
2
replies
440
views
How to make GSEAplot with chip set
geneset
GeneSetEnrichment
msigdb
5 months ago
Seongsu
• 0
7 results • Page
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Comment: Question on performing ANOVA-like analysis using limma
by
Gordon Smyth
51k
What does `sampleid` represent? If you use duplicateCorrelation(), then the blocking factor should be subject, it isn't clear from your que…
Answer: Question on performing ANOVA-like analysis using limma
by
Gordon Smyth
51k
In time course experiments such as this, it is essential to account for baseline variability between subjects, so the second analysis given…
Comment: AffylmGUI does not start wit R 4.4.1
by
Gordon Smyth
51k
Glad to hear that you have figured it out. Your experience might help other people with limmaGUI or affylmGUI on MacOS as well.
Answer: rtracklayer accessing UCSC data table not working
by
James W. MacDonald
67k
The track argument is deprecated now, so you can omit it. ``` > tbl.rmsk <- getTable(ucscTableQuery(mySession, table = "rmsk", range = …
Answer: For feline genome
by
James W. MacDonald
67k
This support site is meant to help people with specific questions about using Bioconductor software. There is a [vignette for `ROntoTools`]…
Votes
Comment: AffylmGUI does not start wit R 4.4.1
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
Comment: Error in GOmeth function of missMethyl when EPICv2 annotation is used
Answer: unable to access Annotationhub latest record
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