Showing : GeneSetEnrichment • reset
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News: GSEA in R/Bioconductor course
GSEABenchmarkeR pairedGSEA GeneSetEnrichment
10 days ago info ▴ 10
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375
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cameraPR() non directional test
CAMERA GeneSetEnrichment
17 days ago • updated 14 days ago Hugo Varet ▴ 80
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178
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News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
19 days ago • updated 10 days ago info ▴ 10
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146
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Comparing Mock vs Infected in WT and Knockout Cells
DESeq2 DifferentialExpression DifferentialRegulation RNASeq GeneSetEnrichment
updated 27 days ago by 43k • written 4 weeks ago by • 0
2
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843
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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 7 months ago by ★ 4.7k • written 7 months ago by • 0
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986
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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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1.6k
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geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
10 months ago Ana • 0
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2
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723
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How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
11 months ago Seongsu • 0
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4.6k
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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 11 months ago by • 0 • written 7.2 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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1.7k
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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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5.3k
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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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1.4k
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enrichment to common gene
GeneSetEnrichment genes genetogo
updated 2.7 years ago by ▴ 780 • written 2.7 years ago by • 0
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11k
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GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 13 months ago by ★ 4.7k • written 3.0 years ago by ▴ 70
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1.8k
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GSEA using clusterProfiler with non-model organism.
clusterProfiler KEGG GeneSetEnrichment
3.4 years ago makrez ▴ 10
3
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2
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1.7k
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Self-contained gene set testing with DESeq2 results
roast DESeq2 GeneSetEnrichment
updated 4.2 years ago by 52k • written 4.2 years ago by • 0
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1
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1.7k
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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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751
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Clusterprofiler - best practise for missing ids
ReactomePA clusterProfiler GeneSetEnrichment
4.3 years ago paun_bio • 0
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4
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3.5k
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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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1.3k
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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
9.1 years ago Ludwig Geistlinger ▴ 70
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7
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5.6k
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Using goseq on non-model organism - how to define genome?
goseq go genesetenrichment
updated 9.2 years ago by 52k • written 9.2 years ago by ▴ 260
2
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1.2k
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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
2
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2
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2.3k
views
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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14
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4.5k
views
reactome.db is not updated?
genesetenrichment pathways reactome.db
updated 9.9 years ago by ▴ 150 • written 10.3 years ago by ★ 1.2k
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1
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5.7k
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Reduce the redundancy of enriched GO terms
GO topgo genesetenrichment
updated 10.1 years ago by ★ 1.6k • written 10.1 years ago by ▴ 150
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1.3k
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Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
10.2 years ago Peter.Wood • 0
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1.9k
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DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
10.3 years ago Guangchuang Yu ★ 1.2k
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2.1k
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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 10.9 years ago by ▴ 70
30 results • Page 1 of 1
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Comment: sesameDataCache is not work properly on my system by Samreen • 0
Any luck with this? I have tried all of the above and it still doesn't work. This is my session info and I'm on a cluster computing environ…
Answer: Using tximport for kallisto aligned TOIL data by James W. MacDonald 68k
If you just have the transcript data, you probably don't need (and maybe cannot use) `tximport`. Instead you could just do the naive thing …
Answer: Reading gene expression data in GPR format and converting it to xlsx format by James W. MacDonald 68k
Setting aside the inadvisability of putting these data into Excel (and I should point out that these data are not single-cell, but instead …
Comment: concentration tables suitable as input for new packages? by wilkinson • 0
I am grateful for your response. Software such as "Spectra" may parse MS-data to generate tables of concentrations, for instance. But inste…
Comment: Removing UTR from GTF for gene quantification by ATpoint ★ 4.7k
Consider asking at biostars or bioinformatics reddit, since this is not directly related to a Bioconductor problem. Anyway, a couple of th…
Votes
Answer: Differential expression of proteins using somascan data
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Answer: Handle zero effective gene length when tximport RSEM results
Handle zero effective gene length when tximport RSEM results
How to remove genes with 0 counts in tximport?
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