Showing : GeneSetEnrichment • reset
9
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13
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6.5k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 3 months ago by ★ 4.1k • written 2.1 years ago by ▴ 30
1
vote
1
reply
5.2k
views
Reduce the redundancy of enriched GO terms
GO topgo genesetenrichment
updated 9.3 years ago by ★ 1.6k • written 9.3 years ago by ▴ 150
5
votes
7
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4.9k
views
Using goseq on non-model organism - how to define genome?
goseq go genesetenrichment
updated 8.4 years ago by 50k • written 8.4 years ago by ▴ 250
8
votes
14
replies
3.8k
views
reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 9.1 years ago by ▴ 150 • written 9.5 years ago by ★ 1.2k
4
votes
4
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3.7k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 6 weeks ago by • 0 • written 6.4 years ago by ▴ 20
0
votes
2
replies
3.3k
views
What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA GeneSetEnrichment
22 months ago Bhavana • 0
1
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4
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3.0k
views
Problem retrieving graphics in clusterprofiler
software error clusterprofiler GO genesetenrichment
8.0 years ago José Luis Lavín ▴ 10
2
votes
2
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2.0k
views
Goseq supported organism (felcat5) has an error when testing
goseq genesetenrichment annotation
updated 8.7 years ago by ▴ 310 • written 8.7 years ago by ▴ 20
0
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3
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1.8k
views
Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ▴ 70
0
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0
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1.7k
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DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
9.5 years ago Guangchuang Yu ★ 1.2k
0
votes
1
reply
1.4k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 3.3 years ago by ▴ 30 • written 3.4 years ago by • 0
1
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0
replies
1.3k
views
GSEA using clusterProfiler with non-model organism.
clusterProfiler KEGG GeneSetEnrichment
2.5 years ago makrez ▴ 10
1
vote
0
replies
1.3k
views
News: Announcing the EnrichmentBrowser 2.0
genesetenrichment functional enrichment enrichmentbrowser News
8.3 years ago Ludwig Geistlinger ▴ 70
3
votes
2
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1.2k
views
Self-contained gene set testing with DESeq2 results
roast DESeq2 GeneSetEnrichment
updated 3.4 years ago by 50k • written 3.4 years ago by • 0
1
vote
0
replies
1.1k
views
performance of limma gene set analysis in relation to Tarca et al. (2013)
limma genesetenrichment
updated 8.2 years ago by ★ 13k • written 8.2 years ago by ▴ 160
0
votes
0
replies
1.1k
views
Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
9.4 years ago Peter.Wood • 0
2
votes
1
reply
1.1k
views
elim method for KEGG pathways?
KEGG genesetenrichment elim
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 40
0
votes
1
reply
878
views
enrichment to common gene
GeneSetEnrichment genes genetogo
updated 23 months ago by ▴ 780 • written 23 months ago by • 0
0
votes
1
reply
808
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 9 months ago by 65k • written 9 months ago by • 0
0
votes
0
replies
563
views
Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
3.5 years ago paun_bio • 0
0
votes
0
replies
332
views
BubbleGUM for multi group comparison of gene set enrichment
RNASeqData GeneSetEnrichment multiGSEA
9 months ago sonal • 0
0
votes
2
replies
183
views
How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
4 weeks ago Seongsu • 0
1
vote
2
replies
138
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
19 days ago Ana • 0
23 results • Page 1 of 1
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Comment: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 with no issues at all. If you're having trouble with Bioc installa…
Comment: package goseq seems to be not available on the latest version of R by Patrycja ▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p- by Chris • 0
Thanks Gordon for the advice! I ran fgsea, gsva and camera(), the most significant pathways are different. For the purpose of finding pathw…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function? by Henrik Bengtsson ★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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