Showing : genesetenrichment • reset
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fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
6 days ago GT • 0
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News: GSEA in R/Bioconductor course
GSEABenchmarkeR pairedGSEA GeneSetEnrichment
23 days ago info ▴ 10
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393
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cameraPR() non directional test
CAMERA GeneSetEnrichment
4 weeks ago • updated 27 days ago Hugo Varet ▴ 80
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235
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News: Gene Set Enrichment Analysis in Bioconductor course
GSEABase GeneSetEnrichment goseq
4 weeks ago • updated 23 days ago info ▴ 10
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158
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Comparing Mock vs Infected in WT and Knockout Cells
DESeq2 DifferentialExpression DifferentialRegulation RNASeq GeneSetEnrichment
updated 5 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 ★ 4.7k • 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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1.6k
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geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
11 months ago Ana • 0
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744
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How to make GSEAplot with chip set
geneset GeneSetEnrichment msigdb
11 months ago Seongsu • 0
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4.7k
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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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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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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 2.8 years ago by ▴ 780 • written 2.8 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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1.9k
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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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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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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
5
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7
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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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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
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2
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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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5.8k
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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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1.3k
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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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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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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
Recent ...
Replies
Comment: DiffBind custom normalization factor by Abbie • 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2? by James W. MacDonald 68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore by Kent • 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore by Michael Love 43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi by Michael Love 43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
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