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GeneSetEnrichment
•
reset
9
votes
13
replies
6.0k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA
GeneSetEnrichment
DifferentialExpression
updated 7 weeks ago by
ATpoint
★ 4.0k • written 2.0 years ago by
nhaus
▴ 10
1
vote
1
reply
5.2k
views
Reduce the redundancy of enriched GO terms
GO
topgo
genesetenrichment
updated 9.2 years ago by
Luo Weijun
★ 1.6k • written 9.2 years ago by
Alan Smith
▴ 150
5
votes
7
replies
4.8k
views
Using goseq on non-model organism - how to define genome?
goseq
go
genesetenrichment
updated 8.3 years ago by
Gordon Smyth
50k • written 8.3 years ago by
Jon Bråte
▴ 250
8
votes
14
replies
3.7k
views
reactome.db is not updated?
genesetenrichment
pathways
reactome.db
updated 9.0 years ago by
willem.ligtenberg
▴ 150 • written 9.4 years ago by
Guangchuang Yu
★ 1.2k
4
votes
4
replies
3.6k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler
GO
GO enrichment
genesetenrichment
updated 8 days ago by
jandrade
• 0 • written 6.3 years ago by
Huang, Lei [BSD] - CRI
▴ 20
0
votes
2
replies
3.0k
views
What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA
GeneSetEnrichment
21 months ago
Bhavana
• 0
1
vote
4
replies
2.9k
views
Problem retrieving graphics in clusterprofiler
software error
clusterprofiler
GO
genesetenrichment
7.9 years ago
José Luis Lavín
▴ 10
2
votes
2
replies
2.0k
views
Goseq supported organism (felcat5) has an error when testing
goseq
genesetenrichment
annotation
updated 8.6 years ago by
Nadia Davidson
▴ 310 • written 8.6 years ago by
xyliu00
▴ 20
0
votes
3
replies
1.8k
views
Running the GSEA algorithm
Microarray
GeneSetEnrichment
PGSEA
GSEABase
GSRI
SeqGSEA
Microarray
GeneSetEnrichment
GSRI
updated 10.0 years ago by
Steve Lianoglou
★ 13k • written 10.0 years ago by
Leif Väremo
▴ 70
0
votes
0
replies
1.6k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment
genesetenrichment
dose
gosemsim
9.4 years ago
Guangchuang Yu
★ 1.2k
0
votes
1
reply
1.3k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler
GeneSetEnrichment
enrichplot
updated 3.2 years ago by
Emilia
▴ 30 • written 3.3 years ago by
saw44
• 0
1
vote
0
replies
1.3k
views
GSEA using clusterProfiler with non-model organism.
clusterProfiler
KEGG
GeneSetEnrichment
2.4 years ago
makrez
▴ 10
1
vote
0
replies
1.3k
views
News:
Announcing the EnrichmentBrowser 2.0
genesetenrichment
functional enrichment
enrichmentbrowser
News
8.2 years ago
Ludwig Geistlinger
▴ 70
3
votes
2
replies
1.2k
views
Self-contained gene set testing with DESeq2 results
roast
DESeq2
GeneSetEnrichment
updated 3.3 years ago by
Gordon Smyth
50k • written 3.3 years ago by
prabin.dm
• 0
0
votes
0
replies
1.1k
views
Using segAnglePo() for a set of genes
geneexpression
genesetenrichment
segAnglePo
9.3 years ago
Peter.Wood
• 0
1
vote
0
replies
1.1k
views
performance of limma gene set analysis in relation to Tarca et al. (2013)
limma
genesetenrichment
updated 8.1 years ago by
Steve Lianoglou
★ 13k • written 8.1 years ago by
Aditya
▴ 160
2
votes
1
reply
1.0k
views
elim method for KEGG pathways?
KEGG
genesetenrichment
elim
updated 8.3 years ago by
James W. MacDonald
65k • written 8.3 years ago by
jacorvar
▴ 40
0
votes
1
reply
799
views
enrichment to common gene
GeneSetEnrichment
genes
genetogo
updated 21 months ago by
Basti
▴ 750 • written 21 months ago by
Noy
• 0
0
votes
1
reply
671
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO
GeneSet
clusterProfiler
GeneSetEnrichment
updated 8 months ago by
James W. MacDonald
65k • written 8 months ago by
manuelsokolov
• 0
0
votes
0
replies
545
views
Clusterprofiler - best practise for missing ids
ReactomePA
clusterProfiler
GeneSetEnrichment
3.4 years ago
paun_bio
• 0
0
votes
0
replies
296
views
BubbleGUM for multi group comparison of gene set enrichment
RNASeqData
GeneSetEnrichment
multiGSEA
8 months ago
sonal
• 0
21 results • Page
1 of 1
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
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Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
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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…
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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