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GeneSetEnrichment
•
reset
2
votes
2
replies
403
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase
fgsea
msigdb
GeneSetEnrichment
4 days ago • updated 3 days ago
Assa Yeroslaviz
★ 1.5k
0
votes
1
reply
252
views
How to rank DEG for GSEA using DEseq2 result ?
DESeq2
limma
GeneSetEnrichment
updated 7 weeks ago by
ATpoint
★ 4.4k • written 7 weeks ago by
picasa1983
• 0
0
votes
1
reply
506
views
Gene set enrichment analysis
clusterProfiler
GeneSetEnrichment
updated 3 months ago by
Guido Hooiveld
★ 4.1k • written 3 months ago by
aogunbaw
• 0
1
vote
2
replies
490
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
4 months ago
Ana
• 0
0
votes
2
replies
414
views
How to make GSEAplot with chip set
geneset
GeneSetEnrichment
msigdb
5 months ago
Seongsu
• 0
4
votes
4
replies
4.1k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler
GO
GO enrichment
genesetenrichment
updated 5 months ago by
jandrade
• 0 • written 6.7 years ago by
Huang, Lei [BSD] - CRI
▴ 20
0
votes
0
replies
480
views
BubbleGUM for multi group comparison of gene set enrichment
RNASeqData
GeneSetEnrichment
multiGSEA
13 months ago
sonal
• 0
0
votes
1
reply
1.2k
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO
GeneSet
clusterProfiler
GeneSetEnrichment
updated 14 months ago by
James W. MacDonald
67k • written 14 months ago by
manuelsokolov
• 0
0
votes
2
replies
4.2k
views
What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA
GeneSetEnrichment
2.2 years ago
Bhavana
• 0
0
votes
1
reply
1.1k
views
enrichment to common gene
GeneSetEnrichment
genes
genetogo
updated 2.2 years ago by
Basti
▴ 780 • written 2.2 years ago by
Noy
• 0
12
votes
13
replies
8.3k
views
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
1
vote
0
replies
1.5k
views
GSEA using clusterProfiler with non-model organism.
clusterProfiler
KEGG
GeneSetEnrichment
2.9 years ago
makrez
▴ 10
3
votes
2
replies
1.4k
views
Self-contained gene set testing with DESeq2 results
roast
DESeq2
GeneSetEnrichment
updated 3.7 years ago by
Gordon Smyth
51k • written 3.7 years ago by
prabin.dm
• 0
0
votes
1
reply
1.5k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler
GeneSetEnrichment
enrichplot
updated 3.7 years ago by
Emilia
▴ 40 • written 3.8 years ago by
saw44
• 0
0
votes
0
replies
662
views
Clusterprofiler - best practise for missing ids
ReactomePA
clusterProfiler
GeneSetEnrichment
3.8 years ago
paun_bio
• 0
1
vote
4
replies
3.2k
views
Problem retrieving graphics in clusterprofiler
software error
clusterprofiler
GO
genesetenrichment
8.4 years ago
José Luis Lavín
▴ 10
1
vote
0
replies
1.2k
views
performance of limma gene set analysis in relation to Tarca et al. (2013)
limma
genesetenrichment
updated 8.5 years ago by
Steve Lianoglou
★ 13k • written 8.5 years ago by
Aditya
▴ 160
1
vote
0
replies
1.4k
views
News:
Announcing the EnrichmentBrowser 2.0
genesetenrichment
functional enrichment
enrichmentbrowser
News
8.6 years ago
Ludwig Geistlinger
▴ 70
5
votes
7
replies
5.2k
views
Using goseq on non-model organism - how to define genome?
goseq
go
genesetenrichment
updated 8.7 years ago by
Gordon Smyth
51k • written 8.7 years ago by
Jon Bråte
▴ 250
2
votes
1
reply
1.1k
views
elim method for KEGG pathways?
KEGG
genesetenrichment
elim
updated 8.8 years ago by
James W. MacDonald
67k • written 8.8 years ago by
jacorvar
▴ 40
2
votes
2
replies
2.1k
views
Goseq supported organism (felcat5) has an error when testing
goseq
genesetenrichment
annotation
updated 9.1 years ago by
Nadia Davidson
▴ 310 • written 9.1 years ago by
xyliu00
▴ 20
8
votes
14
replies
4.1k
views
reactome.db is not updated?
genesetenrichment
pathways
reactome.db
updated 9.4 years ago by
willem.ligtenberg
▴ 150 • written 9.8 years ago by
Guangchuang Yu
★ 1.2k
1
vote
1
reply
5.5k
views
Reduce the redundancy of enriched GO terms
GO
topgo
genesetenrichment
updated 9.6 years ago by
Luo Weijun
★ 1.6k • written 9.6 years ago by
Alan Smith
▴ 150
0
votes
0
replies
1.2k
views
Using segAnglePo() for a set of genes
geneexpression
genesetenrichment
segAnglePo
9.7 years ago
Peter.Wood
• 0
0
votes
0
replies
1.8k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment
genesetenrichment
dose
gosemsim
9.8 years ago
Guangchuang Yu
★ 1.2k
0
votes
3
replies
2.0k
views
Running the GSEA algorithm
Microarray
GeneSetEnrichment
PGSEA
GSEABase
GSRI
SeqGSEA
Microarray
GeneSetEnrichment
GSRI
updated 10.4 years ago by
Steve Lianoglou
★ 13k • written 10.4 years ago by
Leif Väremo
▴ 70
26 results • Page
1 of 1
Recent ...
Replies
Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
by
Michael Love
42k
I request the post here, so not a problem.
Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
by
micolak0115
• 0
Thanks for the advice Michael. I will try this with my future test datasets.
Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
by
micolak0115
• 0
Hi James, I will try to leave only relevant questions on bioconductor forum hereinafter. Thanks for the note. Cheers, Alan
Comment: SingleR Label.Ont
by
Stepah
• 0
[Aussie Play][1] cares about its Australian players by offering a safe and secure gaming experience where there is never a dull moment. The…
Comment: ensemblVEP deprecation and how to reproduce
by
Vincent J. Carey, Jr.
6.7k
What aspect of ensemblVEP are you looking for? The vignette https://bioconductor.org/packages/release/bioc/vignettes/VariantAnnotation/in…
Votes
DEXseq: How to do differential exon usage of genes with overlapping exons
A: Moderated F-test followed by moderated t-test in limma
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
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42k
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67k
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