Showing : genesetenrichment • reset
0
votes
0
replies
370
views
fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
5 months ago GT • 0
0
votes
0
replies
278
views
News: GSEA in R/Bioconductor course
GSEABenchmarkeR pairedGSEA GeneSetEnrichment
6 months ago info ▴ 10
0
votes
2
replies
598
views
cameraPR() non directional test
CAMERA GeneSetEnrichment
6 months ago Hugo Varet ▴ 80
0
votes
1
reply
612
views
News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
6 months ago info ▴ 10
0
votes
1
reply
325
views
Comparing Mock vs Infected in WT and Knockout Cells
DESeq2 DifferentialExpression DifferentialRegulation RNASeq GeneSetEnrichment
updated 6 months ago by 43k • written 6 months ago by • 0
2
votes
2
replies
1.1k
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase fgsea msigdb GeneSetEnrichment
12 months ago Assa Yeroslaviz ★ 1.5k
0
votes
1
reply
1.1k
views
How to rank DEG for GSEA using DEseq2 result ?
DESeq2 limma GeneSetEnrichment
updated 13 months ago by ★ 4.9k • written 13 months ago by • 0
0
votes
1
reply
1.3k
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 15 months ago by ★ 4.1k • written 15 months ago by • 0
1
vote
2
replies
2.4k
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
16 months ago Ana • 0
0
votes
2
replies
955
views
How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
17 months ago Seongsu • 0
4
votes
4
replies
5.1k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 17 months ago by • 0 • written 7.7 years ago by ▴ 20
0
votes
0
replies
763
views
BubbleGUM for multi group comparison of gene set enrichment
RNASeqData GeneSetEnrichment multiGSEA
2.1 years ago sonal • 0
0
votes
1
reply
2.1k
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO GeneSet clusterProfiler GeneSetEnrichment
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
2
replies
5.9k
views
What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA GeneSetEnrichment
3.2 years ago Bhavana • 0
0
votes
1
reply
1.6k
views
enrichment to common gene
GeneSetEnrichment genes genetogo
updated 3.2 years ago by ▴ 780 • written 3.2 years ago by • 0
12
votes
13
replies
12k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 19 months ago by ★ 4.9k • written 3.5 years ago by ▴ 70
1
vote
0
replies
2.1k
views
GSEA using clusterProfiler with non-model organism.
clusterProfiler KEGG GeneSetEnrichment
3.9 years ago makrez ▴ 10
3
votes
2
replies
1.9k
views
Self-contained gene set testing with DESeq2 results
roast DESeq2 GeneSetEnrichment
updated 4.7 years ago by 52k • written 4.7 years ago by • 0
0
votes
1
reply
1.8k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler GeneSetEnrichment enrichplot
updated 4.7 years ago by ▴ 40 • written 4.7 years ago by • 0
0
votes
0
replies
845
views
Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
4.8 years ago paun_bio • 0
1
vote
4
replies
3.7k
views
Problem retrieving graphics in clusterprofiler
software error clusterprofiler GO genesetenrichment
9.3 years ago José Luis Lavín ▴ 10
1
vote
0
replies
1.4k
views
performance of limma gene set analysis in relation to Tarca et al. (2013)
limma genesetenrichment
updated 9.5 years ago by ★ 13k • written 9.5 years ago by ▴ 160
1
vote
0
replies
1.6k
views
News: Announcing the EnrichmentBrowser 2.0
genesetenrichment functional enrichment enrichmentbrowser News
9.6 years ago Ludwig Geistlinger ▴ 70
5
votes
7
replies
5.9k
views
Using goseq on non-model organism - how to define genome?
goseq go genesetenrichment
updated 9.7 years ago by 52k • written 9.7 years ago by ▴ 270
2
votes
1
reply
1.3k
views
elim method for KEGG pathways?
KEGG genesetenrichment elim
updated 9.8 years ago by 68k • written 9.8 years ago by ▴ 40
2
votes
2
replies
2.4k
views
Goseq supported organism (felcat5) has an error when testing
goseq genesetenrichment annotation
updated 10.0 years ago by ▴ 320 • written 10.0 years ago by ▴ 20
8
votes
14
replies
4.9k
views
reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 10.4 years ago by ▴ 150 • written 10.8 years ago by ★ 1.2k
1
vote
1
reply
6.0k
views
Reduce the redundancy of enriched GO terms
GO topgo genesetenrichment
updated 10.6 years ago by ★ 1.6k • written 10.6 years ago by ▴ 150
0
votes
0
replies
1.4k
views
Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
10.7 years ago Peter.Wood • 0
0
votes
0
replies
2.0k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
10.8 years ago Guangchuang Yu ★ 1.2k
0
votes
3
replies
2.2k
views
Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 11.4 years ago by ★ 13k • written 11.4 years ago by ▴ 70
31 results • Page 1 of 1
Recent ...
Replies
Comment: WGCNA analysis on RNAseq and proteoimcs data by sum31278 • 0
Hi sagigordon, Can you share how you performed WGCNA analysis for proteomics data? Thanks
Comment: European Bioconductor Conference 2023 planning by inadequate.peacock.iiag • 0
I once faced a dilemma similar to this when coordinating a smaller local event; despite initial hesitation, I learned invaluable skills and…
Comment: ROAST compare results with complex design by Gordon Smyth 52k
It's also worth pointing out that the syntax for `camera` and `mroast` is the same, so I wonder how OP did the earlier `camera` analysis.
Answer: ROAST compare results with complex design by James W. MacDonald 68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
Votes
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Awards • All
Popular Question to sum31278 • 0
Popular Question to Gordon Smyth 52k
Popular Question to boczniak767 ▴ 740
Popular Question to Young Tae • 0
Popular Question to Robert Castelo ★ 3.4k
Locations • All
India, 46 minutes ago
Pakistan, 50 minutes ago
Vietnam, 55 minutes ago
Seattle, WA, United States, 56 minutes ago
WEHI, Melbourne, Australia, 1 hour ago
Traffic: 1370 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6