Showing : GeneSetEnrichment • reset
8
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14
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3.8k
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reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 9.1 years ago by ▴ 150 • written 9.5 years ago by ★ 1.2k
1
vote
4
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3.0k
views
Problem retrieving graphics in clusterprofiler
software error clusterprofiler GO genesetenrichment
8.1 years ago José Luis Lavín ▴ 10
9
votes
13
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6.8k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 3 months ago by ★ 4.1k • written 2.2 years ago by ▴ 30
4
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4
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3.8k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 8 weeks ago by • 0 • written 6.4 years ago by ▴ 20
2
votes
1
reply
1.1k
views
elim method for KEGG pathways?
KEGG genesetenrichment elim
updated 8.5 years ago by 66k • written 8.5 years ago by ▴ 40
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
0
votes
2
replies
202
views
How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
7 weeks ago Seongsu • 0
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
2
votes
2
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2.0k
views
Goseq supported organism (felcat5) has an error when testing
goseq genesetenrichment annotation
updated 8.8 years ago by ▴ 310 • written 8.8 years ago by ▴ 20
1
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1
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5.3k
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
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
2
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179
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
4 weeks ago Ana • 0
0
votes
1
reply
879
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 10 months ago by 66k • written 10 months ago by • 0
0
votes
2
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3.4k
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What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA GeneSetEnrichment
23 months ago Bhavana • 0
0
votes
1
reply
162
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 8 days ago by ★ 4.0k • written 8 days ago by • 0
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
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0
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346
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BubbleGUM for multi group comparison of gene set enrichment
RNASeqData GeneSetEnrichment multiGSEA
10 months ago sonal • 0
1
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0
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1.4k
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GSEA using clusterProfiler with non-model organism.
clusterProfiler KEGG GeneSetEnrichment
2.6 years ago makrez ▴ 10
0
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0
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1.1k
views
Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
9.4 years ago Peter.Wood • 0
1
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0
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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
1
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0
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1.3k
views
News: Announcing the EnrichmentBrowser 2.0
genesetenrichment functional enrichment enrichmentbrowser News
8.3 years ago Ludwig Geistlinger ▴ 70
0
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0
replies
575
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Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
3.5 years ago paun_bio • 0
0
votes
1
reply
1.4k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 3.4 years ago by ▴ 30 • written 3.4 years ago by • 0
0
votes
1
reply
901
views
enrichment to common gene
GeneSetEnrichment genes genetogo
updated 23 months ago by ▴ 780 • written 23 months ago by • 0
24 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k
You can get the `EnsDb` EnsDb.Taestivum.v112.sqlite (for Ensembl 112/ ensemblgenomes 59) [here](https://www.dropbox.com/sh/msic0luivbldmb7/…
Comment: Errors in chromosome annotation-biomaRt by blackwidowzzz • 0
I recommend using a different dataset specific to your rat genome assembly version 8. You can search for available datasets within Ensembl …
Answer: Errors in chromosome annotation-biomaRt by James W. MacDonald 66k
If you are just using HGNC symbols for the lookup, and you are trying to get NCBI IDs, then I wouldn't use `biomaRt` because it's based on …
Comment: Help with ENmix readidat by James W. MacDonald 66k
Please don't add to posts from two years ago. Instead make a new post. Also, please read the help page for `readidat`. The only reason to …
Comment: LRT, more than two conditions and pairwise comparisons by James W. MacDonald 66k
In that case, probably easiest to subset to the groups being compared.
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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