Showing : GeneSetEnrichment • reset
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fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
9 days ago GT • 0
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News: GSEA in R/Bioconductor course
GSEABenchmarkeR pairedGSEA GeneSetEnrichment
25 days ago info ▴ 10
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cameraPR() non directional test
CAMERA GeneSetEnrichment
4 weeks ago • updated 29 days ago Hugo Varet ▴ 80
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News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
4 weeks ago • updated 25 days ago info ▴ 10
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Comparing Mock vs Infected in WT and Knockout Cells
DESeq2 DifferentialExpression DifferentialRegulation RNASeq GeneSetEnrichment
updated 6 weeks ago by 43k • written 6 weeks ago by • 0
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fgsea stuck in an infinite loop in the middle of the run
GSEABase fgsea msigdb GeneSetEnrichment
6 months ago Assa Yeroslaviz ★ 1.5k
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How to rank DEG for GSEA using DEseq2 result ?
DESeq2 limma GeneSetEnrichment
updated 8 months ago by ★ 4.8k • written 8 months ago by • 0
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Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
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geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
11 months ago Ana • 0
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751
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How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
11 months ago Seongsu • 0
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Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 12 months ago by • 0 • written 7.3 years ago by ▴ 20
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BubbleGUM for multi group comparison of gene set enrichment
RNASeqData GeneSetEnrichment multiGSEA
20 months ago sonal • 0
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How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 20 months ago by 68k • written 20 months ago by • 0
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What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA GeneSetEnrichment
2.7 years ago Bhavana • 0
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enrichment to common gene
GeneSetEnrichment genes genetogo
updated 2.8 years ago by ▴ 780 • written 2.8 years ago by • 0
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GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 13 months ago by ★ 4.8k • written 3.0 years ago by ▴ 70
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GSEA using clusterProfiler with non-model organism.
clusterProfiler KEGG GeneSetEnrichment
3.4 years ago makrez ▴ 10
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1.7k
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Self-contained gene set testing with DESeq2 results
roast DESeq2 GeneSetEnrichment
updated 4.3 years ago by 52k • written 4.3 years ago by • 0
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Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 4.2 years ago by ▴ 40 • written 4.3 years ago by • 0
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Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
4.3 years ago paun_bio • 0
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Problem retrieving graphics in clusterprofiler
software error clusterprofiler GO genesetenrichment
8.9 years ago José Luis Lavín ▴ 10
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performance of limma gene set analysis in relation to Tarca et al. (2013)
limma genesetenrichment
updated 9.0 years ago by ★ 13k • written 9.0 years ago by ▴ 160
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News: Announcing the EnrichmentBrowser 2.0
genesetenrichment functional enrichment enrichmentbrowser News
9.2 years ago Ludwig Geistlinger ▴ 70
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5.7k
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Using goseq on non-model organism - how to define genome?
goseq go genesetenrichment
updated 9.3 years ago by 52k • written 9.3 years ago by ▴ 260
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elim method for KEGG pathways?
KEGG genesetenrichment elim
updated 9.3 years ago by 68k • written 9.3 years ago by ▴ 40
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2.3k
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Goseq supported organism (felcat5) has an error when testing
goseq genesetenrichment annotation
updated 9.6 years ago by ▴ 320 • written 9.6 years ago by ▴ 20
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4.6k
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reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 10.0 years ago by ▴ 150 • written 10.4 years ago by ★ 1.2k
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Reduce the redundancy of enriched GO terms
GO topgo genesetenrichment
updated 10.2 years ago by ★ 1.6k • written 10.2 years ago by ▴ 150
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Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
10.3 years ago Peter.Wood • 0
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DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
10.4 years ago Guangchuang Yu ★ 1.2k
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Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 11.0 years ago by ★ 13k • written 11.0 years ago by ▴ 70
31 results • Page 1 of 1
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Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Benjamin ▴ 20
I have received a response from Ensembl regarding the items I have listed above. I wanted to post it here and will continue to post update…
Answer: Error in cnetplot by Guido Hooiveld ★ 4.1k
Unfortunately you did not show how you generated your input data (the object `enrichment`), nor did you show the output from `sessionInfo()…
Answer: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
I think this is because Ensembl can assign different Gene IDs to "the same gene" if it is found both on a standard chromosome and a scaffol…
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Answer: Merging annotation with differential expression output
Answer: Explannation for ROAST results
Comment: Limma comparing gene expression between base line and one treatment
Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?
clusterProfiler-GO enrichment Error
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